Bindings for protocols::flexpack::interaction_graph namespace

Classes
		builtins.object FlexbbIGFactory rosetta.core.pack.interaction_graph.EdgeBase(builtins.object) FlexbbEdge OTFFlexbbEdge MinimalistFlexbbEdge rosetta.core.pack.interaction_graph.InteractionGraphBase(rosetta.core.pack.interaction_graph.AnnealableGraphBase) FlexbbInteractionGraph OTFFlexbbInteractionGraph MinimalistFlexbbInteractionGraph PrecomputedFlexbbInteractionGraph rosetta.core.pack.interaction_graph.NodeBase(builtins.object) FlexbbNode OTFFlexbbNode MinimalistFlexbbNode rosetta.core.pack.interaction_graph.SparseMatrixIndex(builtins.object) FlexbbSparseMatrixIndex   class FlexbbEdge(rosetta.core.pack.interaction_graph.EdgeBase)       Method resolution order: FlexbbEdge rosetta.core.pack.interaction_graph.EdgeBase builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(self : rosetta.protocols.flexpack.interaction_graph.FlexbbEdge, owner : protocols::flexpack::interaction_graph::FlexbbInteractionGraph, first_node_ind : int, second_node_ind : int) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. acknowledge_partial_state_assignment(...) from builtins.PyCapsule acknowledge_partial_state_assignment(self : rosetta.protocols.flexpack.interaction_graph.FlexbbEdge, node_index : int, new_state : int, state_info : rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex) -> NoneType alt_energy(...) from builtins.PyCapsule alt_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> float count_dynamic_memory(...) from builtins.PyCapsule count_dynamic_memory(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> int cur_energy(...) from builtins.PyCapsule cur_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> float get_nodes_from_same_flexseg(...) from builtins.PyCapsule get_nodes_from_same_flexseg(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> bool note_state_substitution_accepted(...) from builtins.PyCapsule note_state_substitution_accepted(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> NoneType   Copy alt data to current data after a state substitution reset_alternate_states_for_uncommited_substitution(...) from builtins.PyCapsule reset_alternate_states_for_uncommited_substitution(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> NoneType   After a rejected state substitution, the FlexbbNode will call this function  to reset the alt_state data to establish the invariant that the alternate state held  on the flexbb edges reflect the the current state of those nodes not considering a  state substitution set_alt_state(...) from builtins.PyCapsule set_alt_state(self : rosetta.protocols.flexpack.interaction_graph.FlexbbEdge, node_index : int, new_state : int, state_info : rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex) -> NoneType   Called by FlexbbNode in prepare_for_bb_jump: Edges must know the alternate  states that nodes are considering.  Precondition: alt_state_ for a fixed node must  match its cur_state_ Methods inherited from rosetta.core.pack.interaction_graph.EdgeBase: count_static_memory(...) from builtins.PyCapsule count_static_memory(rosetta.core.pack.interaction_graph.EdgeBase) -> int declare_energies_final(...) from builtins.PyCapsule declare_energies_final(rosetta.core.pack.interaction_graph.EdgeBase) -> NoneType edge_weight(...) from builtins.PyCapsule edge_weight(rosetta.core.pack.interaction_graph.EdgeBase) -> float get_first_node_ind(...) from builtins.PyCapsule get_first_node_ind(rosetta.core.pack.interaction_graph.EdgeBase) -> int get_other_ind(...) from builtins.PyCapsule get_other_ind(self : rosetta.core.pack.interaction_graph.EdgeBase, callers_index : int) -> int get_other_node(...) from builtins.PyCapsule get_other_node(self : rosetta.core.pack.interaction_graph.EdgeBase, callers_index : int) -> rosetta.core.pack.interaction_graph.NodeBase get_owner(...) from builtins.PyCapsule get_owner(*args, **kwargs) Overloaded function.   1. get_owner(rosetta.core.pack.interaction_graph.EdgeBase) -> core::pack::interaction_graph::InteractionGraphBase   2. get_owner(rosetta.core.pack.interaction_graph.EdgeBase) -> core::pack::interaction_graph::InteractionGraphBase get_second_node_ind(...) from builtins.PyCapsule get_second_node_ind(rosetta.core.pack.interaction_graph.EdgeBase) -> int prepare_for_simulated_annealing(...) from builtins.PyCapsule prepare_for_simulated_annealing(rosetta.core.pack.interaction_graph.EdgeBase) -> NoneType same_edge(...) from builtins.PyCapsule same_edge(self : rosetta.core.pack.interaction_graph.EdgeBase, node1 : int, node2 : int) -> bool set_edge_weight(...) from builtins.PyCapsule set_edge_weight(self : rosetta.core.pack.interaction_graph.EdgeBase, weight : float) -> NoneType set_pos_in_node_edgevector(...) from builtins.PyCapsule set_pos_in_node_edgevector(self : rosetta.core.pack.interaction_graph.EdgeBase, callers_index : int, position : int) -> NoneType set_pos_in_owners_list(...) from builtins.PyCapsule set_pos_in_owners_list(self : rosetta.core.pack.interaction_graph.EdgeBase, edge_iterator : std::_List_iterator<core::pack::interaction_graph::EdgeBase*>) -> NoneType   class FlexbbIGFactory(builtins.object)       Methods defined here: __init__(...) from builtins.PyCapsule __init__(rosetta.protocols.flexpack.interaction_graph.FlexbbIGFactory) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. create_flexbb_interaction_graph(...) from builtins.PyCapsule create_flexbb_interaction_graph(task : rosetta.core.pack.task.PackerTask, flexrots : protocols::flexpack::rotamer_set::FlexbbRotamerSets, pose : rosetta.core.pose.Pose, scorefxn : rosetta.core.scoring.ScoreFunction) -> protocols::flexpack::interaction_graph::FlexbbInteractionGraph   class FlexbbInteractionGraph(rosetta.core.pack.interaction_graph.InteractionGraphBase)       Method resolution order: FlexbbInteractionGraph rosetta.core.pack.interaction_graph.InteractionGraphBase rosetta.core.pack.interaction_graph.AnnealableGraphBase builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, num_nodes : int) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. commit_considered_backbone_move(...) from builtins.PyCapsule commit_considered_backbone_move(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, rotamer_on_node : ObjexxFCL::FArray1<int>) -> float consider_backbone_move(...) from builtins.PyCapsule consider_backbone_move(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bb_id : int, delta_energy : float, prev_flexseg_energy : float, valid_motion : bool, num_nodes_changing_state : int) -> NoneType consider_bbmove_w_state_substitution(...) from builtins.PyCapsule consider_bbmove_w_state_substitution(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node_ind : int, new_state : int, delta_energy : float, prev_energy_for_flexseg : float, valid_motion : bool, num_nodes_changing_state : int) -> NoneType count_dynamic_memory(...) from builtins.PyCapsule count_dynamic_memory(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> int flexseg_members(...) from builtins.PyCapsule flexseg_members(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, flexseg : int) -> rosetta.utility.vector1_unsigned_long get_accessible_states(...) from builtins.PyCapsule get_accessible_states(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, move_mode : rosetta.protocols.flexpack.interaction_graph.Subsitution, rotlist : rosetta.utility.vector1_unsigned_long) -> NoneType get_backbone_currently_assigned(...) from builtins.PyCapsule get_backbone_currently_assigned(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bbid : int) -> bool   Is the backbone conformation (in the global enumertion of backbone conformations) already  assigned to the network?  False if any residue on the flexible segment that this bbid corresponds to  is assigned state 0. get_backbone_list(...) from builtins.PyCapsule get_backbone_list(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bblist : rosetta.utility.vector1_unsigned_long) -> NoneType get_bb_for_state(...) from builtins.PyCapsule get_bb_for_state(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node : int, state : int) -> int get_enforce_bb_contiguity(...) from builtins.PyCapsule get_enforce_bb_contiguity(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> bool   FlexbbNodes will ask: am I allowed to have a state that breaks the backbone?  There are brief periods when the backbone is "broken" as the graph assigns new states to  nodes on the same flexible segment. get_flexseg_bb_offset(...) from builtins.PyCapsule get_flexseg_bb_offset(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, flexseg_id : int) -> int get_flexseg_for_bb(...) from builtins.PyCapsule get_flexseg_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bb : int) -> int get_num_aa_types(...) from builtins.PyCapsule get_num_aa_types(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> int get_num_states_per_backbone_for_node(...) from builtins.PyCapsule get_num_states_per_backbone_for_node(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node : int, bb : int) -> int increment_count_nodes_in_flexseg(...) from builtins.PyCapsule increment_count_nodes_in_flexseg(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> NoneType   Owner keeps a count of the number of nodes undergoing a  simultaneous rotamer substitution as the backbone moves. initialize(...) from builtins.PyCapsule initialize(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, rot_sets : rosetta.core.pack.rotamer_set.RotamerSetsBase) -> NoneType nodes_from_same_flexseg(...) from builtins.PyCapsule nodes_from_same_flexseg(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node1 : int, node2 : int) -> bool Data and other attributes defined here: BOTH_SC_AND_BB = Subsitution.BOTH_SC_AND_BB SC_ONLY = Subsitution.SC_ONLY Subsitution = <class 'rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph.Subsitution'> Methods inherited from rosetta.core.pack.interaction_graph.InteractionGraphBase: add_edge(...) from builtins.PyCapsule add_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> NoneType add_to_nodes_one_body_energy(...) from builtins.PyCapsule add_to_nodes_one_body_energy(*args, **kwargs) Overloaded function.   1. add_to_nodes_one_body_energy(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, one_body_energies : rosetta.utility.vector1_float) -> NoneType   2. add_to_nodes_one_body_energy(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, one_body_energies : ObjexxFCL::FArray1<float>) -> NoneType   3. add_to_nodes_one_body_energy(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, state_id : int, one_body_energy : float) -> NoneType   interface to PrecomputedPairEnergiesNode::add_to_nodes_one_body_energy add_to_one_body_energies(...) from builtins.PyCapsule add_to_one_body_energies(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, one_body_energies : ObjexxFCL::FArray1<float>) -> NoneType any_vertex_state_unassigned(...) from builtins.PyCapsule any_vertex_state_unassigned(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> bool blanket_assign_state_0(...) from builtins.PyCapsule blanket_assign_state_0(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType commit_considered_substitution(...) from builtins.PyCapsule commit_considered_substitution(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> float consider_substitution(...) from builtins.PyCapsule consider_substitution(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, new_state : int, delta_energy : float, prev_energy_for_node : float) -> NoneType count_connected_components_and_initialize_vertex_groups(...) from builtins.PyCapsule count_connected_components_and_initialize_vertex_groups(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int create_new_edge(...) from builtins.PyCapsule create_new_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, index1 : int, index2 : int) -> rosetta.core.pack.interaction_graph.EdgeBase create_new_node(...) from builtins.PyCapsule create_new_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int, num_states : int) -> rosetta.core.pack.interaction_graph.NodeBase drop_all_edges_for_node(...) from builtins.PyCapsule drop_all_edges_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int) -> NoneType edge_list_iterator_at_end(...) from builtins.PyCapsule edge_list_iterator_at_end(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> bool   test: have we arrived at the edge list end? find_edge(...) from builtins.PyCapsule find_edge(*args, **kwargs) Overloaded function.   1. find_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> rosetta.core.pack.interaction_graph.EdgeBase   The following functions provide access to the nodes and edges in the graph  though, their use is strongly discouraged except for in writing unit tests  to ensure that the graphs are properly implemented.   2. find_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> rosetta.core.pack.interaction_graph.EdgeBase getTotalMemoryUsage(...) from builtins.PyCapsule getTotalMemoryUsage(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_edge(...) from builtins.PyCapsule get_edge(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> rosetta.core.pack.interaction_graph.EdgeBase   return a const reference to an edge pointed at by the list iterator get_edge_exists(...) from builtins.PyCapsule get_edge_exists(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> bool get_edge_list_begin(...) from builtins.PyCapsule get_edge_list_begin(*args, **kwargs) Overloaded function.   1. get_edge_list_begin(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> std::_List_iterator<core::pack::interaction_graph::EdgeBase*>   2. get_edge_list_begin(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> get_edge_list_end(...) from builtins.PyCapsule get_edge_list_end(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> get_edge_memory_usage(...) from builtins.PyCapsule get_edge_memory_usage(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_edge_weight(...) from builtins.PyCapsule get_edge_weight(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> float get_energy_current_state_assignment(...) from builtins.PyCapsule get_energy_current_state_assignment(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> float get_energy_sum_for_vertex_group(...) from builtins.PyCapsule get_energy_sum_for_vertex_group(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, group_id : int) -> float get_node(...) from builtins.PyCapsule get_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, index : int) -> rosetta.core.pack.interaction_graph.NodeBase get_num_edges(...) from builtins.PyCapsule get_num_edges(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_num_nodes(...) from builtins.PyCapsule get_num_nodes(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_num_states_for_node(...) from builtins.PyCapsule get_num_states_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int) -> int get_num_total_states(...) from builtins.PyCapsule get_num_total_states(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_one_body_energy_for_node_state(...) from builtins.PyCapsule get_one_body_energy_for_node_state(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int, state : int) -> float get_vertex_member_of_energy_sum_group(...) from builtins.PyCapsule get_vertex_member_of_energy_sum_group(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int, group_id : int) -> bool increment_edge_list_iterator(...) from builtins.PyCapsule increment_edge_list_iterator(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType   increment the (single) edge list iterator to the next element note_vertex_reached(...) from builtins.PyCapsule note_vertex_reached(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int) -> NoneType prepare_for_simulated_annealing(...) from builtins.PyCapsule prepare_for_simulated_annealing(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType   iterate across edges and nodes and allow them to prepare  for simulated annealing print(...) from builtins.PyCapsule print(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType print_current_state_assignment(...) from builtins.PyCapsule print_current_state_assignment(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType print_vertex_groups(...) from builtins.PyCapsule print_vertex_groups(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType print_vertices(...) from builtins.PyCapsule print_vertices(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType reset_edge_list_iterator_for_node(...) from builtins.PyCapsule reset_edge_list_iterator_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int) -> NoneType   set the Graph's (single) edge list iterator to the beginning of the edge list  for a particular node set_edge_weight(...) from builtins.PyCapsule set_edge_weight(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int, edge_weight : float) -> NoneType set_errorfull_deltaE_threshold(...) from builtins.PyCapsule set_errorfull_deltaE_threshold(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, deltaE : float) -> NoneType set_network_state(...) from builtins.PyCapsule set_network_state(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_states : ObjexxFCL::FArray1<int>) -> float set_num_states_for_node(...) from builtins.PyCapsule set_num_states_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int, num_states : int) -> NoneType set_number_of_energy_sum_vertex_groups(...) from builtins.PyCapsule set_number_of_energy_sum_vertex_groups(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, num_groups : int) -> NoneType set_state_for_node(...) from builtins.PyCapsule set_state_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, new_state : int) -> float set_vertex_member_of_group(...) from builtins.PyCapsule set_vertex_member_of_group(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, vertex : int, group : int) -> NoneType update_one_body_energies(...) from builtins.PyCapsule update_one_body_energies(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, old_energy1b : ObjexxFCL::FArray1<float>, new_energy1b : ObjexxFCL::FArray1<float>) -> NoneType vertex_already_reached(...) from builtins.PyCapsule vertex_already_reached(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int) -> bool zero_one_body_energies_for_node(...) from builtins.PyCapsule zero_one_body_energies_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int) -> NoneType Methods inherited from rosetta.core.pack.interaction_graph.AnnealableGraphBase: assign(...) from builtins.PyCapsule assign(self : rosetta.core.pack.interaction_graph.AnnealableGraphBase,  : rosetta.core.pack.interaction_graph.AnnealableGraphBase) -> rosetta.core.pack.interaction_graph.AnnealableGraphBase   class FlexbbNode(rosetta.core.pack.interaction_graph.NodeBase)       Method resolution order: FlexbbNode rosetta.core.pack.interaction_graph.NodeBase builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, owner : protocols::flexpack::interaction_graph::FlexbbInteractionGraph, node_id : int, num_states : int) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. add_to_one_body_energies(...) from builtins.PyCapsule add_to_one_body_energies(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, energies : ObjexxFCL::FArray1<float>) -> NoneType add_to_one_body_energy(...) from builtins.PyCapsule add_to_one_body_energy(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int, energy : float) -> NoneType alt_bb(...) from builtins.PyCapsule alt_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int alternate_state(...) from builtins.PyCapsule alternate_state(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int alternate_state_info(...) from builtins.PyCapsule alternate_state_info(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex alternate_state_is_being_considered(...) from builtins.PyCapsule alternate_state_is_being_considered(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> bool alternate_state_one_body_energy(...) from builtins.PyCapsule alternate_state_one_body_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> float alternate_state_total_energy(...) from builtins.PyCapsule alternate_state_total_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> float alternate_state_two_body_energies(...) from builtins.PyCapsule alternate_state_two_body_energies(*args, **kwargs) Overloaded function.   1. alternate_state_two_body_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_float   2. alternate_state_two_body_energies(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, ind : int) -> float closest_state_on_alt_bb(...) from builtins.PyCapsule closest_state_on_alt_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> ObjexxFCL::FArray2D<int> count_dynamic_memory(...) from builtins.PyCapsule count_dynamic_memory(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int count_energy_to_node_in_my_fragtotalE(...) from builtins.PyCapsule count_energy_to_node_in_my_fragtotalE(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, edge_index : int) -> bool   Convention for acumulating energies between flexsegmates during a backbone move:  The smaller-indexed node counts the interaction, the larger-indexed node does not. curr_bb(...) from builtins.PyCapsule curr_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int curr_state_one_body_energy(...) from builtins.PyCapsule curr_state_one_body_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> float curr_state_total_energy(...) from builtins.PyCapsule curr_state_total_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> float curr_state_two_body_energies(...) from builtins.PyCapsule curr_state_two_body_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_float current_state(...) from builtins.PyCapsule current_state(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int current_state_info(...) from builtins.PyCapsule current_state_info(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex edge_connects_flexsegmate(...) from builtins.PyCapsule edge_connects_flexsegmate(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_bool getNumStatesPerAAPerBB(...) from builtins.PyCapsule getNumStatesPerAAPerBB(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, aa : int) -> ObjexxFCL::FArray1A<int> get_all_states(...) from builtins.PyCapsule get_all_states(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, rotlist : rosetta.utility.vector1_unsigned_long, offset : int) -> NoneType get_backbone_for_current_state(...) from builtins.PyCapsule get_backbone_for_current_state(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int get_bb_for_state(...) from builtins.PyCapsule get_bb_for_state(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int) -> int get_current_state(...) from builtins.PyCapsule get_current_state(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int get_num_distinct_backbones(...) from builtins.PyCapsule get_num_distinct_backbones(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int get_num_states_for_aa_type_for_bb(...) from builtins.PyCapsule get_num_states_for_aa_type_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, aa_type : int, bb : int) -> int get_num_states_for_bb(...) from builtins.PyCapsule get_num_states_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, bbconf : int) -> int get_one_body_energy(...) from builtins.PyCapsule get_one_body_energy(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int) -> float get_state_offset_for_bb(...) from builtins.PyCapsule get_state_offset_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, bbconf : int) -> int get_states_on_curr_bb(...) from builtins.PyCapsule get_states_on_curr_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state_list : rosetta.utility.vector1_unsigned_long, offset : int) -> NoneType inform_edges_of_alt_state_before_bbjump(...) from builtins.PyCapsule inform_edges_of_alt_state_before_bbjump(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> bool num_aa_types(...) from builtins.PyCapsule num_aa_types(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int   Read access to private data to both derived classes and the world num_bbconfs(...) from builtins.PyCapsule num_bbconfs(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int num_states_for_aa_for_bb(...) from builtins.PyCapsule num_states_for_aa_for_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> ObjexxFCL::FArray2D<int> num_states_for_bb(...) from builtins.PyCapsule num_states_for_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_int one_body_energies(...) from builtins.PyCapsule one_body_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_float prepare_for_simulated_annealing(...) from builtins.PyCapsule prepare_for_simulated_annealing(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> NoneType print(...) from builtins.PyCapsule print(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> NoneType print_internal_energies(...) from builtins.PyCapsule print_internal_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> NoneType set_amino_acid_types(...) from builtins.PyCapsule set_amino_acid_types(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode,  : rosetta.utility.vector1_int) -> NoneType set_closest_states_on_other_bbs(...) from builtins.PyCapsule set_closest_states_on_other_bbs(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode,  : ObjexxFCL::FArray2D<int>) -> NoneType set_num_distinct_backbones(...) from builtins.PyCapsule set_num_distinct_backbones(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, nbbconfs : int) -> NoneType set_num_states_per_backbone(...) from builtins.PyCapsule set_num_states_per_backbone(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode,  : rosetta.utility.vector1_int) -> NoneType state_has_same_backbone_as_current(...) from builtins.PyCapsule state_has_same_backbone_as_current(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int) -> bool state_info(...) from builtins.PyCapsule state_info(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int) -> rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex state_offsets_for_aa_for_bb(...) from builtins.PyCapsule state_offsets_for_aa_for_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> ObjexxFCL::FArray2D<int> state_offsets_for_bb(...) from builtins.PyCapsule state_offsets_for_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_int state_unassigned(...) from builtins.PyCapsule state_unassigned(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> bool update_internal_energy_sums(...) from builtins.PyCapsule update_internal_energy_sums(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> NoneType update_one_body_energy(...) from builtins.PyCapsule update_one_body_energy(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int, energy : float) -> NoneType write_current_state_to_state_array(...) from builtins.PyCapsule write_current_state_to_state_array(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, nodes_states : ObjexxFCL::FArray1<int>) -> NoneType zero_one_body_energies(...) from builtins.PyCapsule zero_one_body_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> NoneType Methods inherited from rosetta.core.pack.interaction_graph.NodeBase: add_edge(...) from builtins.PyCapsule add_edge(self : rosetta.core.pack.interaction_graph.NodeBase, edge_ptr : core::pack::interaction_graph::EdgeBase) -> std::_List_iterator<core::pack::interaction_graph::EdgeBase*> assign_zero_state(...) from builtins.PyCapsule assign_zero_state(rosetta.core.pack.interaction_graph.NodeBase) -> NoneType count_static_memory(...) from builtins.PyCapsule count_static_memory(rosetta.core.pack.interaction_graph.NodeBase) -> int depth_first_connected_component_counting(...) from builtins.PyCapsule depth_first_connected_component_counting(rosetta.core.pack.interaction_graph.NodeBase) -> NoneType drop_all_edges(...) from builtins.PyCapsule drop_all_edges(rosetta.core.pack.interaction_graph.NodeBase) -> NoneType drop_edge(...) from builtins.PyCapsule drop_edge(self : rosetta.core.pack.interaction_graph.NodeBase, edge_iterator : std::_List_iterator<core::pack::interaction_graph::EdgeBase*>) -> NoneType edge_list_begin(...) from builtins.PyCapsule edge_list_begin(rosetta.core.pack.interaction_graph.NodeBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> edge_list_end(...) from builtins.PyCapsule edge_list_end(rosetta.core.pack.interaction_graph.NodeBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> find_edge(...) from builtins.PyCapsule find_edge(self : rosetta.core.pack.interaction_graph.NodeBase, other_node_index : int) -> core::pack::interaction_graph::EdgeBase get_adjacent_node(...) from builtins.PyCapsule get_adjacent_node(*args, **kwargs) Overloaded function.   1. get_adjacent_node(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> rosetta.core.pack.interaction_graph.NodeBase   2. get_adjacent_node(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> rosetta.core.pack.interaction_graph.NodeBase get_incident_edge(...) from builtins.PyCapsule get_incident_edge(*args, **kwargs) Overloaded function.   1. get_incident_edge(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> core::pack::interaction_graph::EdgeBase   These functions are public for the sake of writing good unit tests   2. get_incident_edge(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> core::pack::interaction_graph::EdgeBase get_index_of_adjacent_node(...) from builtins.PyCapsule get_index_of_adjacent_node(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> int get_node_index(...) from builtins.PyCapsule get_node_index(rosetta.core.pack.interaction_graph.NodeBase) -> int get_num_edges_to_larger_indexed_nodes(...) from builtins.PyCapsule get_num_edges_to_larger_indexed_nodes(rosetta.core.pack.interaction_graph.NodeBase) -> int get_num_edges_to_smaller_indexed_nodes(...) from builtins.PyCapsule get_num_edges_to_smaller_indexed_nodes(rosetta.core.pack.interaction_graph.NodeBase) -> int get_num_incident_edges(...) from builtins.PyCapsule get_num_incident_edges(rosetta.core.pack.interaction_graph.NodeBase) -> int get_num_states(...) from builtins.PyCapsule get_num_states(rosetta.core.pack.interaction_graph.NodeBase) -> int   class FlexbbSparseMatrixIndex(rosetta.core.pack.interaction_graph.SparseMatrixIndex)       Method resolution order: FlexbbSparseMatrixIndex rosetta.core.pack.interaction_graph.SparseMatrixIndex builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. assign(...) from builtins.PyCapsule assign(self : rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex,  : rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex) -> rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex get_bb(...) from builtins.PyCapsule get_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex) -> int set_bb(...) from builtins.PyCapsule set_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex, bb : int) -> NoneType Methods inherited from rosetta.core.pack.interaction_graph.SparseMatrixIndex: get_aa_type(...) from builtins.PyCapsule get_aa_type(rosetta.core.pack.interaction_graph.SparseMatrixIndex) -> int get_state_ind_for_this_aa_type(...) from builtins.PyCapsule get_state_ind_for_this_aa_type(rosetta.core.pack.interaction_graph.SparseMatrixIndex) -> int set_aa_type(...) from builtins.PyCapsule set_aa_type(self : rosetta.core.pack.interaction_graph.SparseMatrixIndex, aa : int) -> NoneType set_state_ind_for_this_aa_type(...) from builtins.PyCapsule set_state_ind_for_this_aa_type(self : rosetta.core.pack.interaction_graph.SparseMatrixIndex, state_ind : int) -> NoneType   class MinimalistFlexbbEdge(OTFFlexbbEdge)       Method resolution order: MinimalistFlexbbEdge OTFFlexbbEdge FlexbbEdge rosetta.core.pack.interaction_graph.EdgeBase builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(self : handle, owner : protocols::flexpack::interaction_graph::MinimalistFlexbbInteractionGraph, node1 : int, node2 : int) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. acknowledge_state_zeroed(...) from builtins.PyCapsule acknowledge_state_zeroed(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbEdge, node_index : int) -> NoneType acknowledge_substitution(...) from builtins.PyCapsule acknowledge_substitution(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbEdge, node_changing_state : int) -> NoneType count_dynamic_memory(...) from builtins.PyCapsule count_dynamic_memory(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbEdge) -> int count_static_memory(...) from builtins.PyCapsule count_static_memory(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbEdge) -> int declare_energies_final(...) from builtins.PyCapsule declare_energies_final(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbEdge) -> NoneType   Virtual functions from EdgeBase get_alt_stateE(...) from builtins.PyCapsule get_alt_stateE(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbEdge) -> float prepare_for_simulated_annealing(...) from builtins.PyCapsule prepare_for_simulated_annealing(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbEdge) -> NoneType set_edge_weight(...) from builtins.PyCapsule set_edge_weight(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbEdge, weight : float) -> NoneType Methods inherited from OTFFlexbbEdge: compute_altbbconf_alternate_state_energy(...) from builtins.PyCapsule compute_altbbconf_alternate_state_energy(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> float compute_samebbconf_alternate_state_energy_first_node(...) from builtins.PyCapsule compute_samebbconf_alternate_state_energy_first_node(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> float compute_samebbconf_alternate_state_energy_second_node(...) from builtins.PyCapsule compute_samebbconf_alternate_state_energy_second_node(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> float note_long_range_interactions_exist(...) from builtins.PyCapsule note_long_range_interactions_exist(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> NoneType otfedge_note_substitution_accepted(...) from builtins.PyCapsule otfedge_note_substitution_accepted(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> NoneType print_alt_energies(...) from builtins.PyCapsule print_alt_energies(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> NoneType set_GlyCorrection_values(...) from builtins.PyCapsule set_GlyCorrection_values(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge, node_not_necessarily_glycine : int, state : int, other_bb : int, bb_nonglybb_E : float, bb_glybb_E : float, sc_nonglybb_E : float, sc_glybb_E : float) -> NoneType set_ProCorrection_values(...) from builtins.PyCapsule set_ProCorrection_values(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge, node_not_necessarily_proline : int, state : int, other_bb : int, bb_nonprobb_E : float, bb_probb_E : float, sc_nonprobb_E : float, sc_probb_E : float) -> NoneType Methods inherited from FlexbbEdge: acknowledge_partial_state_assignment(...) from builtins.PyCapsule acknowledge_partial_state_assignment(self : rosetta.protocols.flexpack.interaction_graph.FlexbbEdge, node_index : int, new_state : int, state_info : rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex) -> NoneType alt_energy(...) from builtins.PyCapsule alt_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> float cur_energy(...) from builtins.PyCapsule cur_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> float get_nodes_from_same_flexseg(...) from builtins.PyCapsule get_nodes_from_same_flexseg(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> bool note_state_substitution_accepted(...) from builtins.PyCapsule note_state_substitution_accepted(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> NoneType   Copy alt data to current data after a state substitution reset_alternate_states_for_uncommited_substitution(...) from builtins.PyCapsule reset_alternate_states_for_uncommited_substitution(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> NoneType   After a rejected state substitution, the FlexbbNode will call this function  to reset the alt_state data to establish the invariant that the alternate state held  on the flexbb edges reflect the the current state of those nodes not considering a  state substitution set_alt_state(...) from builtins.PyCapsule set_alt_state(self : rosetta.protocols.flexpack.interaction_graph.FlexbbEdge, node_index : int, new_state : int, state_info : rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex) -> NoneType   Called by FlexbbNode in prepare_for_bb_jump: Edges must know the alternate  states that nodes are considering.  Precondition: alt_state_ for a fixed node must  match its cur_state_ Methods inherited from rosetta.core.pack.interaction_graph.EdgeBase: edge_weight(...) from builtins.PyCapsule edge_weight(rosetta.core.pack.interaction_graph.EdgeBase) -> float get_first_node_ind(...) from builtins.PyCapsule get_first_node_ind(rosetta.core.pack.interaction_graph.EdgeBase) -> int get_other_ind(...) from builtins.PyCapsule get_other_ind(self : rosetta.core.pack.interaction_graph.EdgeBase, callers_index : int) -> int get_other_node(...) from builtins.PyCapsule get_other_node(self : rosetta.core.pack.interaction_graph.EdgeBase, callers_index : int) -> rosetta.core.pack.interaction_graph.NodeBase get_owner(...) from builtins.PyCapsule get_owner(*args, **kwargs) Overloaded function.   1. get_owner(rosetta.core.pack.interaction_graph.EdgeBase) -> core::pack::interaction_graph::InteractionGraphBase   2. get_owner(rosetta.core.pack.interaction_graph.EdgeBase) -> core::pack::interaction_graph::InteractionGraphBase get_second_node_ind(...) from builtins.PyCapsule get_second_node_ind(rosetta.core.pack.interaction_graph.EdgeBase) -> int same_edge(...) from builtins.PyCapsule same_edge(self : rosetta.core.pack.interaction_graph.EdgeBase, node1 : int, node2 : int) -> bool set_pos_in_node_edgevector(...) from builtins.PyCapsule set_pos_in_node_edgevector(self : rosetta.core.pack.interaction_graph.EdgeBase, callers_index : int, position : int) -> NoneType set_pos_in_owners_list(...) from builtins.PyCapsule set_pos_in_owners_list(self : rosetta.core.pack.interaction_graph.EdgeBase, edge_iterator : std::_List_iterator<core::pack::interaction_graph::EdgeBase*>) -> NoneType   class MinimalistFlexbbInteractionGraph(OTFFlexbbInteractionGraph)       Method resolution order: MinimalistFlexbbInteractionGraph OTFFlexbbInteractionGraph FlexbbInteractionGraph rosetta.core.pack.interaction_graph.InteractionGraphBase rosetta.core.pack.interaction_graph.AnnealableGraphBase builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(self : handle, num_nodes : int) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. blanket_assign_state_0(...) from builtins.PyCapsule blanket_assign_state_0(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph) -> NoneType commit_considered_substitution(...) from builtins.PyCapsule commit_considered_substitution(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph) -> float consider_backbone_move(...) from builtins.PyCapsule consider_backbone_move(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph, bb_id : int, delta_energy : float, prev_flexseg_energy : float, valid_motion : bool, num_nodes_changing_state : int) -> NoneType   Virtual functions from FlexbbInteractionGraph consider_bbmove_w_state_substitution(...) from builtins.PyCapsule consider_bbmove_w_state_substitution(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph, node_ind : int, new_state : int, delta_energy : float, prev_energy_for_flexseg : float, valid_motion : bool, num_nodes_changing_state : int) -> NoneType consider_substitution(...) from builtins.PyCapsule consider_substitution(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph, node_ind : int, new_state : int, delta_energy : float, prev_energy_for_node : float) -> NoneType get_edge_memory_usage(...) from builtins.PyCapsule get_edge_memory_usage(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph) -> int get_energy_current_state_assignment(...) from builtins.PyCapsule get_energy_current_state_assignment(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph) -> float get_energy_sum_for_vertex_group(...) from builtins.PyCapsule get_energy_sum_for_vertex_group(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph, group_id : int) -> float get_one_body_energy_for_node_state(...) from builtins.PyCapsule get_one_body_energy_for_node_state(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph, node : int, state : int) -> float initialize(...) from builtins.PyCapsule initialize(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph, rot_sets : rosetta.core.pack.rotamer_set.RotamerSetsBase) -> NoneType   Virtual functions from InteractionGraphBase print_current_state_assignment(...) from builtins.PyCapsule print_current_state_assignment(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph) -> NoneType set_errorfull_deltaE_threshold(...) from builtins.PyCapsule set_errorfull_deltaE_threshold(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph, deltaE : float) -> NoneType set_network_state(...) from builtins.PyCapsule set_network_state(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph, node_states : ObjexxFCL::FArray1<int>) -> float set_state_for_node(...) from builtins.PyCapsule set_state_for_node(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbInteractionGraph, node_ind : int, new_state : int) -> float Methods inherited from OTFFlexbbInteractionGraph: count_dynamic_memory(...) from builtins.PyCapsule count_dynamic_memory(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph) -> int debug_note_accepted_substitution(...) from builtins.PyCapsule debug_note_accepted_substitution(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph) -> NoneType debug_note_considered_substitution(...) from builtins.PyCapsule debug_note_considered_substitution(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, alt_rotamer : rosetta.core.conformation.Residue, index : int) -> NoneType debug_note_projected_deltaE_of_considered_substitution(...) from builtins.PyCapsule debug_note_projected_deltaE_of_considered_substitution(*args, **kwargs) Overloaded function.   1. debug_note_projected_deltaE_of_considered_substitution(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, deltaE : float, node_alt_total : float) -> NoneType   2. debug_note_projected_deltaE_of_considered_substitution(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, deltaE : float, node_alt_total : float, require_match : bool) -> NoneType debug_note_rejected_substitution(...) from builtins.PyCapsule debug_note_rejected_substitution(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph) -> NoneType get_pose(...) from builtins.PyCapsule get_pose(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph) -> rosetta.core.pose.Pose   Edges request the pose and the score function at the time of their creation. get_scorefxn(...) from builtins.PyCapsule get_scorefxn(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph) -> rosetta.core.scoring.ScoreFunction note_long_range_interactions_exist_for_edge(...) from builtins.PyCapsule note_long_range_interactions_exist_for_edge(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, node1 : int, node2 : int) -> NoneType   Informs the edge connecting nodes 1 and 2 that they require long range interactions.  Note -- the edge must already exist. set_GlyCorrection_values_for_edge(...) from builtins.PyCapsule set_GlyCorrection_values_for_edge(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, node1 : int, node2 : int, node_not_necessarily_glycine : int, state : int, other_bb : int, bb_nonglybb_E : float, bb_glybb_E : float, sc_nonglybb_E : float, sc_glybb_E : float) -> NoneType set_ProCorrection_values_for_edge(...) from builtins.PyCapsule set_ProCorrection_values_for_edge(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, node1 : int, node2 : int, node_not_necessarily_proline : int, state : int, other_bb : int, bb_nonprobb_E : float, bb_probb_E : float, sc_nonprobb_E : float, sc_probb_E : float) -> NoneType set_pose(...) from builtins.PyCapsule set_pose(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, pose : rosetta.core.pose.Pose) -> NoneType   Pose must be set before any edges are added to the graph. set_scorefxn(...) from builtins.PyCapsule set_scorefxn(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, sfxn : rosetta.core.scoring.ScoreFunction) -> NoneType   Score function must be set before any edges are added to the graph. Methods inherited from FlexbbInteractionGraph: commit_considered_backbone_move(...) from builtins.PyCapsule commit_considered_backbone_move(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, rotamer_on_node : ObjexxFCL::FArray1<int>) -> float flexseg_members(...) from builtins.PyCapsule flexseg_members(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, flexseg : int) -> rosetta.utility.vector1_unsigned_long get_accessible_states(...) from builtins.PyCapsule get_accessible_states(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, move_mode : rosetta.protocols.flexpack.interaction_graph.Subsitution, rotlist : rosetta.utility.vector1_unsigned_long) -> NoneType get_backbone_currently_assigned(...) from builtins.PyCapsule get_backbone_currently_assigned(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bbid : int) -> bool   Is the backbone conformation (in the global enumertion of backbone conformations) already  assigned to the network?  False if any residue on the flexible segment that this bbid corresponds to  is assigned state 0. get_backbone_list(...) from builtins.PyCapsule get_backbone_list(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bblist : rosetta.utility.vector1_unsigned_long) -> NoneType get_bb_for_state(...) from builtins.PyCapsule get_bb_for_state(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node : int, state : int) -> int get_enforce_bb_contiguity(...) from builtins.PyCapsule get_enforce_bb_contiguity(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> bool   FlexbbNodes will ask: am I allowed to have a state that breaks the backbone?  There are brief periods when the backbone is "broken" as the graph assigns new states to  nodes on the same flexible segment. get_flexseg_bb_offset(...) from builtins.PyCapsule get_flexseg_bb_offset(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, flexseg_id : int) -> int get_flexseg_for_bb(...) from builtins.PyCapsule get_flexseg_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bb : int) -> int get_num_aa_types(...) from builtins.PyCapsule get_num_aa_types(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> int get_num_states_per_backbone_for_node(...) from builtins.PyCapsule get_num_states_per_backbone_for_node(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node : int, bb : int) -> int increment_count_nodes_in_flexseg(...) from builtins.PyCapsule increment_count_nodes_in_flexseg(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> NoneType   Owner keeps a count of the number of nodes undergoing a  simultaneous rotamer substitution as the backbone moves. nodes_from_same_flexseg(...) from builtins.PyCapsule nodes_from_same_flexseg(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node1 : int, node2 : int) -> bool Data and other attributes inherited from FlexbbInteractionGraph: BOTH_SC_AND_BB = Subsitution.BOTH_SC_AND_BB SC_ONLY = Subsitution.SC_ONLY Subsitution = <class 'rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph.Subsitution'> Methods inherited from rosetta.core.pack.interaction_graph.InteractionGraphBase: add_edge(...) from builtins.PyCapsule add_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> NoneType add_to_nodes_one_body_energy(...) from builtins.PyCapsule add_to_nodes_one_body_energy(*args, **kwargs) Overloaded function.   1. add_to_nodes_one_body_energy(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, one_body_energies : rosetta.utility.vector1_float) -> NoneType   2. add_to_nodes_one_body_energy(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, one_body_energies : ObjexxFCL::FArray1<float>) -> NoneType   3. add_to_nodes_one_body_energy(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, state_id : int, one_body_energy : float) -> NoneType   interface to PrecomputedPairEnergiesNode::add_to_nodes_one_body_energy add_to_one_body_energies(...) from builtins.PyCapsule add_to_one_body_energies(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, one_body_energies : ObjexxFCL::FArray1<float>) -> NoneType any_vertex_state_unassigned(...) from builtins.PyCapsule any_vertex_state_unassigned(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> bool count_connected_components_and_initialize_vertex_groups(...) from builtins.PyCapsule count_connected_components_and_initialize_vertex_groups(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int create_new_edge(...) from builtins.PyCapsule create_new_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, index1 : int, index2 : int) -> rosetta.core.pack.interaction_graph.EdgeBase create_new_node(...) from builtins.PyCapsule create_new_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int, num_states : int) -> rosetta.core.pack.interaction_graph.NodeBase drop_all_edges_for_node(...) from builtins.PyCapsule drop_all_edges_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int) -> NoneType edge_list_iterator_at_end(...) from builtins.PyCapsule edge_list_iterator_at_end(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> bool   test: have we arrived at the edge list end? find_edge(...) from builtins.PyCapsule find_edge(*args, **kwargs) Overloaded function.   1. find_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> rosetta.core.pack.interaction_graph.EdgeBase   The following functions provide access to the nodes and edges in the graph  though, their use is strongly discouraged except for in writing unit tests  to ensure that the graphs are properly implemented.   2. find_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> rosetta.core.pack.interaction_graph.EdgeBase getTotalMemoryUsage(...) from builtins.PyCapsule getTotalMemoryUsage(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_edge(...) from builtins.PyCapsule get_edge(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> rosetta.core.pack.interaction_graph.EdgeBase   return a const reference to an edge pointed at by the list iterator get_edge_exists(...) from builtins.PyCapsule get_edge_exists(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> bool get_edge_list_begin(...) from builtins.PyCapsule get_edge_list_begin(*args, **kwargs) Overloaded function.   1. get_edge_list_begin(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> std::_List_iterator<core::pack::interaction_graph::EdgeBase*>   2. get_edge_list_begin(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> get_edge_list_end(...) from builtins.PyCapsule get_edge_list_end(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> get_edge_weight(...) from builtins.PyCapsule get_edge_weight(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> float get_node(...) from builtins.PyCapsule get_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, index : int) -> rosetta.core.pack.interaction_graph.NodeBase get_num_edges(...) from builtins.PyCapsule get_num_edges(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_num_nodes(...) from builtins.PyCapsule get_num_nodes(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_num_states_for_node(...) from builtins.PyCapsule get_num_states_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int) -> int get_num_total_states(...) from builtins.PyCapsule get_num_total_states(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_vertex_member_of_energy_sum_group(...) from builtins.PyCapsule get_vertex_member_of_energy_sum_group(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int, group_id : int) -> bool increment_edge_list_iterator(...) from builtins.PyCapsule increment_edge_list_iterator(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType   increment the (single) edge list iterator to the next element note_vertex_reached(...) from builtins.PyCapsule note_vertex_reached(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int) -> NoneType prepare_for_simulated_annealing(...) from builtins.PyCapsule prepare_for_simulated_annealing(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType   iterate across edges and nodes and allow them to prepare  for simulated annealing print(...) from builtins.PyCapsule print(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType print_vertex_groups(...) from builtins.PyCapsule print_vertex_groups(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType print_vertices(...) from builtins.PyCapsule print_vertices(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType reset_edge_list_iterator_for_node(...) from builtins.PyCapsule reset_edge_list_iterator_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int) -> NoneType   set the Graph's (single) edge list iterator to the beginning of the edge list  for a particular node set_edge_weight(...) from builtins.PyCapsule set_edge_weight(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int, edge_weight : float) -> NoneType set_num_states_for_node(...) from builtins.PyCapsule set_num_states_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int, num_states : int) -> NoneType set_number_of_energy_sum_vertex_groups(...) from builtins.PyCapsule set_number_of_energy_sum_vertex_groups(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, num_groups : int) -> NoneType set_vertex_member_of_group(...) from builtins.PyCapsule set_vertex_member_of_group(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, vertex : int, group : int) -> NoneType update_one_body_energies(...) from builtins.PyCapsule update_one_body_energies(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, old_energy1b : ObjexxFCL::FArray1<float>, new_energy1b : ObjexxFCL::FArray1<float>) -> NoneType vertex_already_reached(...) from builtins.PyCapsule vertex_already_reached(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int) -> bool zero_one_body_energies_for_node(...) from builtins.PyCapsule zero_one_body_energies_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int) -> NoneType Methods inherited from rosetta.core.pack.interaction_graph.AnnealableGraphBase: assign(...) from builtins.PyCapsule assign(self : rosetta.core.pack.interaction_graph.AnnealableGraphBase,  : rosetta.core.pack.interaction_graph.AnnealableGraphBase) -> rosetta.core.pack.interaction_graph.AnnealableGraphBase   class MinimalistFlexbbNode(OTFFlexbbNode)       Method resolution order: MinimalistFlexbbNode OTFFlexbbNode FlexbbNode rosetta.core.pack.interaction_graph.NodeBase builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(self : handle, owner : protocols::flexpack::interaction_graph::MinimalistFlexbbInteractionGraph, node_id : int, num_states : int) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. acknowledge_neighbors_substitution(...) from builtins.PyCapsule acknowledge_neighbors_substitution(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode, which_edge : int, alternate_energy : float) -> NoneType assign_state(...) from builtins.PyCapsule assign_state(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode, new_state : int) -> float   assign a new state to this node and return the change in energy induced assign_zero_state(...) from builtins.PyCapsule assign_zero_state(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode) -> NoneType   Virtual functions from NodeBase not covered by FlexbbNode commit_alt_bb_substitution(...) from builtins.PyCapsule commit_alt_bb_substitution(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode, state_on_node : ObjexxFCL::FArray1<int>) -> NoneType commit_considered_substitution(...) from builtins.PyCapsule commit_considered_substitution(*args, **kwargs) Overloaded function.   1. commit_considered_substitution(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode) -> NoneType   2. commit_considered_substitution(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode, state_on_node : ObjexxFCL::FArray1<int>) -> NoneType complete_partial_state_assignment(...) from builtins.PyCapsule complete_partial_state_assignment(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode) -> NoneType   See description of partially_assign_state. count_dynamic_memory(...) from builtins.PyCapsule count_dynamic_memory(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode) -> int count_static_memory(...) from builtins.PyCapsule count_static_memory(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode) -> int get_frag_energy_for_alt_bb_state(...) from builtins.PyCapsule get_frag_energy_for_alt_bb_state(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode) -> float get_frag_energy_for_curr_bb_state_and_finalize_alt_energy_total(...) from builtins.PyCapsule get_frag_energy_for_curr_bb_state_and_finalize_alt_energy_total(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode) -> float partially_assign_state(...) from builtins.PyCapsule partially_assign_state(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode, new_state : int) -> NoneType   For assinging network states to the interaction graph: when substituting  two adjacent nodes i and j from states r and s to states r' and s', this  function, along with its partner function, complete_partial_state_assignment,  guarantees that neither the energies r' with s nor s' with r are computed  which would be wasteful.  This function is meant to be called by the  owning interaction graph and not meant to be called by the outside world. prepare_for_altbb_move_to_closest_state(...) from builtins.PyCapsule prepare_for_altbb_move_to_closest_state(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode, alt_bb : int) -> bool   Set the alternate state to be the one on the alternate backbone  most similar to the currently assigned state.  Traverse incident edges and inform them of the alternate  state being considered at this node.  Return true if the alternate  state is valid. prepare_for_altbb_move_to_state(...) from builtins.PyCapsule prepare_for_altbb_move_to_state(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode, alt_state : int) -> bool   Traverse incident edges and inform them of the alternate  state being considered at this node.  Return true if the alternate  state is valid. prepare_for_simulated_annealing(...) from builtins.PyCapsule prepare_for_simulated_annealing(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode) -> NoneType print(...) from builtins.PyCapsule print(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode) -> NoneType project_deltaE_for_substitution(...) from builtins.PyCapsule project_deltaE_for_substitution(self : rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode, alternate_state : int, prev_energy_for_node : float) -> float   Other functions resolve_uncommitted_substitution(...) from builtins.PyCapsule resolve_uncommitted_substitution(rosetta.protocols.flexpack.interaction_graph.MinimalistFlexbbNode) -> NoneType Methods inherited from OTFFlexbbNode: bounding_radius_for_rotamers(...) from builtins.PyCapsule bounding_radius_for_rotamers(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode, aatype : int, bb : int) -> float declare_all_rotamers_initialized(...) from builtins.PyCapsule declare_all_rotamers_initialized(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode) -> NoneType rotamer(...) from builtins.PyCapsule rotamer(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode, index : int) -> rosetta.core.conformation.Residue rotamer_is_glycine(...) from builtins.PyCapsule rotamer_is_glycine(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode, state : int) -> bool rotamer_is_proline(...) from builtins.PyCapsule rotamer_is_proline(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode, state : int) -> bool set_rotamer(...) from builtins.PyCapsule set_rotamer(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode, state : int, rotamer : rosetta.core.conformation.Residue) -> NoneType Methods inherited from FlexbbNode: add_to_one_body_energies(...) from builtins.PyCapsule add_to_one_body_energies(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, energies : ObjexxFCL::FArray1<float>) -> NoneType add_to_one_body_energy(...) from builtins.PyCapsule add_to_one_body_energy(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int, energy : float) -> NoneType alt_bb(...) from builtins.PyCapsule alt_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int alternate_state(...) from builtins.PyCapsule alternate_state(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int alternate_state_info(...) from builtins.PyCapsule alternate_state_info(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex alternate_state_is_being_considered(...) from builtins.PyCapsule alternate_state_is_being_considered(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> bool alternate_state_one_body_energy(...) from builtins.PyCapsule alternate_state_one_body_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> float alternate_state_total_energy(...) from builtins.PyCapsule alternate_state_total_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> float alternate_state_two_body_energies(...) from builtins.PyCapsule alternate_state_two_body_energies(*args, **kwargs) Overloaded function.   1. alternate_state_two_body_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_float   2. alternate_state_two_body_energies(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, ind : int) -> float closest_state_on_alt_bb(...) from builtins.PyCapsule closest_state_on_alt_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> ObjexxFCL::FArray2D<int> count_energy_to_node_in_my_fragtotalE(...) from builtins.PyCapsule count_energy_to_node_in_my_fragtotalE(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, edge_index : int) -> bool   Convention for acumulating energies between flexsegmates during a backbone move:  The smaller-indexed node counts the interaction, the larger-indexed node does not. curr_bb(...) from builtins.PyCapsule curr_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int curr_state_one_body_energy(...) from builtins.PyCapsule curr_state_one_body_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> float curr_state_total_energy(...) from builtins.PyCapsule curr_state_total_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> float curr_state_two_body_energies(...) from builtins.PyCapsule curr_state_two_body_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_float current_state(...) from builtins.PyCapsule current_state(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int current_state_info(...) from builtins.PyCapsule current_state_info(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex edge_connects_flexsegmate(...) from builtins.PyCapsule edge_connects_flexsegmate(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_bool getNumStatesPerAAPerBB(...) from builtins.PyCapsule getNumStatesPerAAPerBB(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, aa : int) -> ObjexxFCL::FArray1A<int> get_all_states(...) from builtins.PyCapsule get_all_states(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, rotlist : rosetta.utility.vector1_unsigned_long, offset : int) -> NoneType get_backbone_for_current_state(...) from builtins.PyCapsule get_backbone_for_current_state(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int get_bb_for_state(...) from builtins.PyCapsule get_bb_for_state(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int) -> int get_current_state(...) from builtins.PyCapsule get_current_state(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int get_num_distinct_backbones(...) from builtins.PyCapsule get_num_distinct_backbones(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int get_num_states_for_aa_type_for_bb(...) from builtins.PyCapsule get_num_states_for_aa_type_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, aa_type : int, bb : int) -> int get_num_states_for_bb(...) from builtins.PyCapsule get_num_states_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, bbconf : int) -> int get_one_body_energy(...) from builtins.PyCapsule get_one_body_energy(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int) -> float get_state_offset_for_bb(...) from builtins.PyCapsule get_state_offset_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, bbconf : int) -> int get_states_on_curr_bb(...) from builtins.PyCapsule get_states_on_curr_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state_list : rosetta.utility.vector1_unsigned_long, offset : int) -> NoneType inform_edges_of_alt_state_before_bbjump(...) from builtins.PyCapsule inform_edges_of_alt_state_before_bbjump(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> bool num_aa_types(...) from builtins.PyCapsule num_aa_types(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int   Read access to private data to both derived classes and the world num_bbconfs(...) from builtins.PyCapsule num_bbconfs(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int num_states_for_aa_for_bb(...) from builtins.PyCapsule num_states_for_aa_for_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> ObjexxFCL::FArray2D<int> num_states_for_bb(...) from builtins.PyCapsule num_states_for_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_int one_body_energies(...) from builtins.PyCapsule one_body_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_float print_internal_energies(...) from builtins.PyCapsule print_internal_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> NoneType set_amino_acid_types(...) from builtins.PyCapsule set_amino_acid_types(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode,  : rosetta.utility.vector1_int) -> NoneType set_closest_states_on_other_bbs(...) from builtins.PyCapsule set_closest_states_on_other_bbs(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode,  : ObjexxFCL::FArray2D<int>) -> NoneType set_num_distinct_backbones(...) from builtins.PyCapsule set_num_distinct_backbones(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, nbbconfs : int) -> NoneType set_num_states_per_backbone(...) from builtins.PyCapsule set_num_states_per_backbone(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode,  : rosetta.utility.vector1_int) -> NoneType state_has_same_backbone_as_current(...) from builtins.PyCapsule state_has_same_backbone_as_current(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int) -> bool state_info(...) from builtins.PyCapsule state_info(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int) -> rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex state_offsets_for_aa_for_bb(...) from builtins.PyCapsule state_offsets_for_aa_for_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> ObjexxFCL::FArray2D<int> state_offsets_for_bb(...) from builtins.PyCapsule state_offsets_for_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_int state_unassigned(...) from builtins.PyCapsule state_unassigned(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> bool update_internal_energy_sums(...) from builtins.PyCapsule update_internal_energy_sums(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> NoneType update_one_body_energy(...) from builtins.PyCapsule update_one_body_energy(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int, energy : float) -> NoneType write_current_state_to_state_array(...) from builtins.PyCapsule write_current_state_to_state_array(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, nodes_states : ObjexxFCL::FArray1<int>) -> NoneType zero_one_body_energies(...) from builtins.PyCapsule zero_one_body_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> NoneType Methods inherited from rosetta.core.pack.interaction_graph.NodeBase: add_edge(...) from builtins.PyCapsule add_edge(self : rosetta.core.pack.interaction_graph.NodeBase, edge_ptr : core::pack::interaction_graph::EdgeBase) -> std::_List_iterator<core::pack::interaction_graph::EdgeBase*> depth_first_connected_component_counting(...) from builtins.PyCapsule depth_first_connected_component_counting(rosetta.core.pack.interaction_graph.NodeBase) -> NoneType drop_all_edges(...) from builtins.PyCapsule drop_all_edges(rosetta.core.pack.interaction_graph.NodeBase) -> NoneType drop_edge(...) from builtins.PyCapsule drop_edge(self : rosetta.core.pack.interaction_graph.NodeBase, edge_iterator : std::_List_iterator<core::pack::interaction_graph::EdgeBase*>) -> NoneType edge_list_begin(...) from builtins.PyCapsule edge_list_begin(rosetta.core.pack.interaction_graph.NodeBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> edge_list_end(...) from builtins.PyCapsule edge_list_end(rosetta.core.pack.interaction_graph.NodeBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> find_edge(...) from builtins.PyCapsule find_edge(self : rosetta.core.pack.interaction_graph.NodeBase, other_node_index : int) -> core::pack::interaction_graph::EdgeBase get_adjacent_node(...) from builtins.PyCapsule get_adjacent_node(*args, **kwargs) Overloaded function.   1. get_adjacent_node(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> rosetta.core.pack.interaction_graph.NodeBase   2. get_adjacent_node(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> rosetta.core.pack.interaction_graph.NodeBase get_incident_edge(...) from builtins.PyCapsule get_incident_edge(*args, **kwargs) Overloaded function.   1. get_incident_edge(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> core::pack::interaction_graph::EdgeBase   These functions are public for the sake of writing good unit tests   2. get_incident_edge(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> core::pack::interaction_graph::EdgeBase get_index_of_adjacent_node(...) from builtins.PyCapsule get_index_of_adjacent_node(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> int get_node_index(...) from builtins.PyCapsule get_node_index(rosetta.core.pack.interaction_graph.NodeBase) -> int get_num_edges_to_larger_indexed_nodes(...) from builtins.PyCapsule get_num_edges_to_larger_indexed_nodes(rosetta.core.pack.interaction_graph.NodeBase) -> int get_num_edges_to_smaller_indexed_nodes(...) from builtins.PyCapsule get_num_edges_to_smaller_indexed_nodes(rosetta.core.pack.interaction_graph.NodeBase) -> int get_num_incident_edges(...) from builtins.PyCapsule get_num_incident_edges(rosetta.core.pack.interaction_graph.NodeBase) -> int get_num_states(...) from builtins.PyCapsule get_num_states(rosetta.core.pack.interaction_graph.NodeBase) -> int   class OTFFlexbbEdge(FlexbbEdge)       Method resolution order: OTFFlexbbEdge FlexbbEdge rosetta.core.pack.interaction_graph.EdgeBase builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge, owner : protocols::flexpack::interaction_graph::OTFFlexbbInteractionGraph, node1 : int, node2 : int) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. compute_altbbconf_alternate_state_energy(...) from builtins.PyCapsule compute_altbbconf_alternate_state_energy(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> float compute_samebbconf_alternate_state_energy_first_node(...) from builtins.PyCapsule compute_samebbconf_alternate_state_energy_first_node(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> float compute_samebbconf_alternate_state_energy_second_node(...) from builtins.PyCapsule compute_samebbconf_alternate_state_energy_second_node(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> float count_dynamic_memory(...) from builtins.PyCapsule count_dynamic_memory(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> int note_long_range_interactions_exist(...) from builtins.PyCapsule note_long_range_interactions_exist(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> NoneType otfedge_note_substitution_accepted(...) from builtins.PyCapsule otfedge_note_substitution_accepted(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> NoneType prepare_for_simulated_annealing(...) from builtins.PyCapsule prepare_for_simulated_annealing(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> NoneType print_alt_energies(...) from builtins.PyCapsule print_alt_energies(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge) -> NoneType set_GlyCorrection_values(...) from builtins.PyCapsule set_GlyCorrection_values(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge, node_not_necessarily_glycine : int, state : int, other_bb : int, bb_nonglybb_E : float, bb_glybb_E : float, sc_nonglybb_E : float, sc_glybb_E : float) -> NoneType set_ProCorrection_values(...) from builtins.PyCapsule set_ProCorrection_values(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbEdge, node_not_necessarily_proline : int, state : int, other_bb : int, bb_nonprobb_E : float, bb_probb_E : float, sc_nonprobb_E : float, sc_probb_E : float) -> NoneType Methods inherited from FlexbbEdge: acknowledge_partial_state_assignment(...) from builtins.PyCapsule acknowledge_partial_state_assignment(self : rosetta.protocols.flexpack.interaction_graph.FlexbbEdge, node_index : int, new_state : int, state_info : rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex) -> NoneType alt_energy(...) from builtins.PyCapsule alt_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> float cur_energy(...) from builtins.PyCapsule cur_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> float get_nodes_from_same_flexseg(...) from builtins.PyCapsule get_nodes_from_same_flexseg(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> bool note_state_substitution_accepted(...) from builtins.PyCapsule note_state_substitution_accepted(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> NoneType   Copy alt data to current data after a state substitution reset_alternate_states_for_uncommited_substitution(...) from builtins.PyCapsule reset_alternate_states_for_uncommited_substitution(rosetta.protocols.flexpack.interaction_graph.FlexbbEdge) -> NoneType   After a rejected state substitution, the FlexbbNode will call this function  to reset the alt_state data to establish the invariant that the alternate state held  on the flexbb edges reflect the the current state of those nodes not considering a  state substitution set_alt_state(...) from builtins.PyCapsule set_alt_state(self : rosetta.protocols.flexpack.interaction_graph.FlexbbEdge, node_index : int, new_state : int, state_info : rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex) -> NoneType   Called by FlexbbNode in prepare_for_bb_jump: Edges must know the alternate  states that nodes are considering.  Precondition: alt_state_ for a fixed node must  match its cur_state_ Methods inherited from rosetta.core.pack.interaction_graph.EdgeBase: count_static_memory(...) from builtins.PyCapsule count_static_memory(rosetta.core.pack.interaction_graph.EdgeBase) -> int declare_energies_final(...) from builtins.PyCapsule declare_energies_final(rosetta.core.pack.interaction_graph.EdgeBase) -> NoneType edge_weight(...) from builtins.PyCapsule edge_weight(rosetta.core.pack.interaction_graph.EdgeBase) -> float get_first_node_ind(...) from builtins.PyCapsule get_first_node_ind(rosetta.core.pack.interaction_graph.EdgeBase) -> int get_other_ind(...) from builtins.PyCapsule get_other_ind(self : rosetta.core.pack.interaction_graph.EdgeBase, callers_index : int) -> int get_other_node(...) from builtins.PyCapsule get_other_node(self : rosetta.core.pack.interaction_graph.EdgeBase, callers_index : int) -> rosetta.core.pack.interaction_graph.NodeBase get_owner(...) from builtins.PyCapsule get_owner(*args, **kwargs) Overloaded function.   1. get_owner(rosetta.core.pack.interaction_graph.EdgeBase) -> core::pack::interaction_graph::InteractionGraphBase   2. get_owner(rosetta.core.pack.interaction_graph.EdgeBase) -> core::pack::interaction_graph::InteractionGraphBase get_second_node_ind(...) from builtins.PyCapsule get_second_node_ind(rosetta.core.pack.interaction_graph.EdgeBase) -> int same_edge(...) from builtins.PyCapsule same_edge(self : rosetta.core.pack.interaction_graph.EdgeBase, node1 : int, node2 : int) -> bool set_edge_weight(...) from builtins.PyCapsule set_edge_weight(self : rosetta.core.pack.interaction_graph.EdgeBase, weight : float) -> NoneType set_pos_in_node_edgevector(...) from builtins.PyCapsule set_pos_in_node_edgevector(self : rosetta.core.pack.interaction_graph.EdgeBase, callers_index : int, position : int) -> NoneType set_pos_in_owners_list(...) from builtins.PyCapsule set_pos_in_owners_list(self : rosetta.core.pack.interaction_graph.EdgeBase, edge_iterator : std::_List_iterator<core::pack::interaction_graph::EdgeBase*>) -> NoneType   class OTFFlexbbInteractionGraph(FlexbbInteractionGraph)       Method resolution order: OTFFlexbbInteractionGraph FlexbbInteractionGraph rosetta.core.pack.interaction_graph.InteractionGraphBase rosetta.core.pack.interaction_graph.AnnealableGraphBase builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, num_nodes : int) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. count_dynamic_memory(...) from builtins.PyCapsule count_dynamic_memory(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph) -> int debug_note_accepted_substitution(...) from builtins.PyCapsule debug_note_accepted_substitution(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph) -> NoneType debug_note_considered_substitution(...) from builtins.PyCapsule debug_note_considered_substitution(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, alt_rotamer : rosetta.core.conformation.Residue, index : int) -> NoneType debug_note_projected_deltaE_of_considered_substitution(...) from builtins.PyCapsule debug_note_projected_deltaE_of_considered_substitution(*args, **kwargs) Overloaded function.   1. debug_note_projected_deltaE_of_considered_substitution(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, deltaE : float, node_alt_total : float) -> NoneType   2. debug_note_projected_deltaE_of_considered_substitution(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, deltaE : float, node_alt_total : float, require_match : bool) -> NoneType debug_note_rejected_substitution(...) from builtins.PyCapsule debug_note_rejected_substitution(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph) -> NoneType get_pose(...) from builtins.PyCapsule get_pose(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph) -> rosetta.core.pose.Pose   Edges request the pose and the score function at the time of their creation. get_scorefxn(...) from builtins.PyCapsule get_scorefxn(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph) -> rosetta.core.scoring.ScoreFunction initialize(...) from builtins.PyCapsule initialize(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph,  : rosetta.core.pack.rotamer_set.RotamerSetsBase) -> NoneType note_long_range_interactions_exist_for_edge(...) from builtins.PyCapsule note_long_range_interactions_exist_for_edge(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, node1 : int, node2 : int) -> NoneType   Informs the edge connecting nodes 1 and 2 that they require long range interactions.  Note -- the edge must already exist. set_GlyCorrection_values_for_edge(...) from builtins.PyCapsule set_GlyCorrection_values_for_edge(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, node1 : int, node2 : int, node_not_necessarily_glycine : int, state : int, other_bb : int, bb_nonglybb_E : float, bb_glybb_E : float, sc_nonglybb_E : float, sc_glybb_E : float) -> NoneType set_ProCorrection_values_for_edge(...) from builtins.PyCapsule set_ProCorrection_values_for_edge(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, node1 : int, node2 : int, node_not_necessarily_proline : int, state : int, other_bb : int, bb_nonprobb_E : float, bb_probb_E : float, sc_nonprobb_E : float, sc_probb_E : float) -> NoneType set_pose(...) from builtins.PyCapsule set_pose(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, pose : rosetta.core.pose.Pose) -> NoneType   Pose must be set before any edges are added to the graph. set_scorefxn(...) from builtins.PyCapsule set_scorefxn(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbInteractionGraph, sfxn : rosetta.core.scoring.ScoreFunction) -> NoneType   Score function must be set before any edges are added to the graph. Methods inherited from FlexbbInteractionGraph: commit_considered_backbone_move(...) from builtins.PyCapsule commit_considered_backbone_move(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, rotamer_on_node : ObjexxFCL::FArray1<int>) -> float consider_backbone_move(...) from builtins.PyCapsule consider_backbone_move(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bb_id : int, delta_energy : float, prev_flexseg_energy : float, valid_motion : bool, num_nodes_changing_state : int) -> NoneType consider_bbmove_w_state_substitution(...) from builtins.PyCapsule consider_bbmove_w_state_substitution(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node_ind : int, new_state : int, delta_energy : float, prev_energy_for_flexseg : float, valid_motion : bool, num_nodes_changing_state : int) -> NoneType flexseg_members(...) from builtins.PyCapsule flexseg_members(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, flexseg : int) -> rosetta.utility.vector1_unsigned_long get_accessible_states(...) from builtins.PyCapsule get_accessible_states(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, move_mode : rosetta.protocols.flexpack.interaction_graph.Subsitution, rotlist : rosetta.utility.vector1_unsigned_long) -> NoneType get_backbone_currently_assigned(...) from builtins.PyCapsule get_backbone_currently_assigned(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bbid : int) -> bool   Is the backbone conformation (in the global enumertion of backbone conformations) already  assigned to the network?  False if any residue on the flexible segment that this bbid corresponds to  is assigned state 0. get_backbone_list(...) from builtins.PyCapsule get_backbone_list(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bblist : rosetta.utility.vector1_unsigned_long) -> NoneType get_bb_for_state(...) from builtins.PyCapsule get_bb_for_state(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node : int, state : int) -> int get_enforce_bb_contiguity(...) from builtins.PyCapsule get_enforce_bb_contiguity(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> bool   FlexbbNodes will ask: am I allowed to have a state that breaks the backbone?  There are brief periods when the backbone is "broken" as the graph assigns new states to  nodes on the same flexible segment. get_flexseg_bb_offset(...) from builtins.PyCapsule get_flexseg_bb_offset(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, flexseg_id : int) -> int get_flexseg_for_bb(...) from builtins.PyCapsule get_flexseg_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bb : int) -> int get_num_aa_types(...) from builtins.PyCapsule get_num_aa_types(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> int get_num_states_per_backbone_for_node(...) from builtins.PyCapsule get_num_states_per_backbone_for_node(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node : int, bb : int) -> int increment_count_nodes_in_flexseg(...) from builtins.PyCapsule increment_count_nodes_in_flexseg(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> NoneType   Owner keeps a count of the number of nodes undergoing a  simultaneous rotamer substitution as the backbone moves. nodes_from_same_flexseg(...) from builtins.PyCapsule nodes_from_same_flexseg(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node1 : int, node2 : int) -> bool Data and other attributes inherited from FlexbbInteractionGraph: BOTH_SC_AND_BB = Subsitution.BOTH_SC_AND_BB SC_ONLY = Subsitution.SC_ONLY Subsitution = <class 'rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph.Subsitution'> Methods inherited from rosetta.core.pack.interaction_graph.InteractionGraphBase: add_edge(...) from builtins.PyCapsule add_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> NoneType add_to_nodes_one_body_energy(...) from builtins.PyCapsule add_to_nodes_one_body_energy(*args, **kwargs) Overloaded function.   1. add_to_nodes_one_body_energy(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, one_body_energies : rosetta.utility.vector1_float) -> NoneType   2. add_to_nodes_one_body_energy(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, one_body_energies : ObjexxFCL::FArray1<float>) -> NoneType   3. add_to_nodes_one_body_energy(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, state_id : int, one_body_energy : float) -> NoneType   interface to PrecomputedPairEnergiesNode::add_to_nodes_one_body_energy add_to_one_body_energies(...) from builtins.PyCapsule add_to_one_body_energies(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, one_body_energies : ObjexxFCL::FArray1<float>) -> NoneType any_vertex_state_unassigned(...) from builtins.PyCapsule any_vertex_state_unassigned(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> bool blanket_assign_state_0(...) from builtins.PyCapsule blanket_assign_state_0(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType commit_considered_substitution(...) from builtins.PyCapsule commit_considered_substitution(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> float consider_substitution(...) from builtins.PyCapsule consider_substitution(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, new_state : int, delta_energy : float, prev_energy_for_node : float) -> NoneType count_connected_components_and_initialize_vertex_groups(...) from builtins.PyCapsule count_connected_components_and_initialize_vertex_groups(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int create_new_edge(...) from builtins.PyCapsule create_new_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, index1 : int, index2 : int) -> rosetta.core.pack.interaction_graph.EdgeBase create_new_node(...) from builtins.PyCapsule create_new_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int, num_states : int) -> rosetta.core.pack.interaction_graph.NodeBase drop_all_edges_for_node(...) from builtins.PyCapsule drop_all_edges_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int) -> NoneType edge_list_iterator_at_end(...) from builtins.PyCapsule edge_list_iterator_at_end(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> bool   test: have we arrived at the edge list end? find_edge(...) from builtins.PyCapsule find_edge(*args, **kwargs) Overloaded function.   1. find_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> rosetta.core.pack.interaction_graph.EdgeBase   The following functions provide access to the nodes and edges in the graph  though, their use is strongly discouraged except for in writing unit tests  to ensure that the graphs are properly implemented.   2. find_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> rosetta.core.pack.interaction_graph.EdgeBase getTotalMemoryUsage(...) from builtins.PyCapsule getTotalMemoryUsage(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_edge(...) from builtins.PyCapsule get_edge(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> rosetta.core.pack.interaction_graph.EdgeBase   return a const reference to an edge pointed at by the list iterator get_edge_exists(...) from builtins.PyCapsule get_edge_exists(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> bool get_edge_list_begin(...) from builtins.PyCapsule get_edge_list_begin(*args, **kwargs) Overloaded function.   1. get_edge_list_begin(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> std::_List_iterator<core::pack::interaction_graph::EdgeBase*>   2. get_edge_list_begin(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> get_edge_list_end(...) from builtins.PyCapsule get_edge_list_end(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> get_edge_memory_usage(...) from builtins.PyCapsule get_edge_memory_usage(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_edge_weight(...) from builtins.PyCapsule get_edge_weight(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> float get_energy_current_state_assignment(...) from builtins.PyCapsule get_energy_current_state_assignment(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> float get_energy_sum_for_vertex_group(...) from builtins.PyCapsule get_energy_sum_for_vertex_group(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, group_id : int) -> float get_node(...) from builtins.PyCapsule get_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, index : int) -> rosetta.core.pack.interaction_graph.NodeBase get_num_edges(...) from builtins.PyCapsule get_num_edges(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_num_nodes(...) from builtins.PyCapsule get_num_nodes(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_num_states_for_node(...) from builtins.PyCapsule get_num_states_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int) -> int get_num_total_states(...) from builtins.PyCapsule get_num_total_states(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_one_body_energy_for_node_state(...) from builtins.PyCapsule get_one_body_energy_for_node_state(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int, state : int) -> float get_vertex_member_of_energy_sum_group(...) from builtins.PyCapsule get_vertex_member_of_energy_sum_group(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int, group_id : int) -> bool increment_edge_list_iterator(...) from builtins.PyCapsule increment_edge_list_iterator(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType   increment the (single) edge list iterator to the next element note_vertex_reached(...) from builtins.PyCapsule note_vertex_reached(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int) -> NoneType prepare_for_simulated_annealing(...) from builtins.PyCapsule prepare_for_simulated_annealing(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType   iterate across edges and nodes and allow them to prepare  for simulated annealing print(...) from builtins.PyCapsule print(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType print_current_state_assignment(...) from builtins.PyCapsule print_current_state_assignment(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType print_vertex_groups(...) from builtins.PyCapsule print_vertex_groups(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType print_vertices(...) from builtins.PyCapsule print_vertices(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType reset_edge_list_iterator_for_node(...) from builtins.PyCapsule reset_edge_list_iterator_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int) -> NoneType   set the Graph's (single) edge list iterator to the beginning of the edge list  for a particular node set_edge_weight(...) from builtins.PyCapsule set_edge_weight(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int, edge_weight : float) -> NoneType set_errorfull_deltaE_threshold(...) from builtins.PyCapsule set_errorfull_deltaE_threshold(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, deltaE : float) -> NoneType set_network_state(...) from builtins.PyCapsule set_network_state(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_states : ObjexxFCL::FArray1<int>) -> float set_num_states_for_node(...) from builtins.PyCapsule set_num_states_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int, num_states : int) -> NoneType set_number_of_energy_sum_vertex_groups(...) from builtins.PyCapsule set_number_of_energy_sum_vertex_groups(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, num_groups : int) -> NoneType set_state_for_node(...) from builtins.PyCapsule set_state_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, new_state : int) -> float set_vertex_member_of_group(...) from builtins.PyCapsule set_vertex_member_of_group(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, vertex : int, group : int) -> NoneType update_one_body_energies(...) from builtins.PyCapsule update_one_body_energies(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, old_energy1b : ObjexxFCL::FArray1<float>, new_energy1b : ObjexxFCL::FArray1<float>) -> NoneType vertex_already_reached(...) from builtins.PyCapsule vertex_already_reached(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int) -> bool zero_one_body_energies_for_node(...) from builtins.PyCapsule zero_one_body_energies_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int) -> NoneType Methods inherited from rosetta.core.pack.interaction_graph.AnnealableGraphBase: assign(...) from builtins.PyCapsule assign(self : rosetta.core.pack.interaction_graph.AnnealableGraphBase,  : rosetta.core.pack.interaction_graph.AnnealableGraphBase) -> rosetta.core.pack.interaction_graph.AnnealableGraphBase   class OTFFlexbbNode(FlexbbNode)       Method resolution order: OTFFlexbbNode FlexbbNode rosetta.core.pack.interaction_graph.NodeBase builtins.object Methods defined here: __init__(...) from builtins.PyCapsule __init__(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode,  : protocols::flexpack::interaction_graph::OTFFlexbbInteractionGraph, node_id : int, num_states : int) -> NoneType __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. bounding_radius_for_rotamers(...) from builtins.PyCapsule bounding_radius_for_rotamers(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode, aatype : int, bb : int) -> float count_dynamic_memory(...) from builtins.PyCapsule count_dynamic_memory(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode) -> int declare_all_rotamers_initialized(...) from builtins.PyCapsule declare_all_rotamers_initialized(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode) -> NoneType print(...) from builtins.PyCapsule print(rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode) -> NoneType rotamer(...) from builtins.PyCapsule rotamer(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode, index : int) -> rosetta.core.conformation.Residue rotamer_is_glycine(...) from builtins.PyCapsule rotamer_is_glycine(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode, state : int) -> bool rotamer_is_proline(...) from builtins.PyCapsule rotamer_is_proline(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode, state : int) -> bool set_rotamer(...) from builtins.PyCapsule set_rotamer(self : rosetta.protocols.flexpack.interaction_graph.OTFFlexbbNode, state : int, rotamer : rosetta.core.conformation.Residue) -> NoneType Methods inherited from FlexbbNode: add_to_one_body_energies(...) from builtins.PyCapsule add_to_one_body_energies(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, energies : ObjexxFCL::FArray1<float>) -> NoneType add_to_one_body_energy(...) from builtins.PyCapsule add_to_one_body_energy(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int, energy : float) -> NoneType alt_bb(...) from builtins.PyCapsule alt_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int alternate_state(...) from builtins.PyCapsule alternate_state(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int alternate_state_info(...) from builtins.PyCapsule alternate_state_info(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex alternate_state_is_being_considered(...) from builtins.PyCapsule alternate_state_is_being_considered(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> bool alternate_state_one_body_energy(...) from builtins.PyCapsule alternate_state_one_body_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> float alternate_state_total_energy(...) from builtins.PyCapsule alternate_state_total_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> float alternate_state_two_body_energies(...) from builtins.PyCapsule alternate_state_two_body_energies(*args, **kwargs) Overloaded function.   1. alternate_state_two_body_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_float   2. alternate_state_two_body_energies(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, ind : int) -> float closest_state_on_alt_bb(...) from builtins.PyCapsule closest_state_on_alt_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> ObjexxFCL::FArray2D<int> count_energy_to_node_in_my_fragtotalE(...) from builtins.PyCapsule count_energy_to_node_in_my_fragtotalE(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, edge_index : int) -> bool   Convention for acumulating energies between flexsegmates during a backbone move:  The smaller-indexed node counts the interaction, the larger-indexed node does not. curr_bb(...) from builtins.PyCapsule curr_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int curr_state_one_body_energy(...) from builtins.PyCapsule curr_state_one_body_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> float curr_state_total_energy(...) from builtins.PyCapsule curr_state_total_energy(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> float curr_state_two_body_energies(...) from builtins.PyCapsule curr_state_two_body_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_float current_state(...) from builtins.PyCapsule current_state(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int current_state_info(...) from builtins.PyCapsule current_state_info(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex edge_connects_flexsegmate(...) from builtins.PyCapsule edge_connects_flexsegmate(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_bool getNumStatesPerAAPerBB(...) from builtins.PyCapsule getNumStatesPerAAPerBB(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, aa : int) -> ObjexxFCL::FArray1A<int> get_all_states(...) from builtins.PyCapsule get_all_states(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, rotlist : rosetta.utility.vector1_unsigned_long, offset : int) -> NoneType get_backbone_for_current_state(...) from builtins.PyCapsule get_backbone_for_current_state(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int get_bb_for_state(...) from builtins.PyCapsule get_bb_for_state(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int) -> int get_current_state(...) from builtins.PyCapsule get_current_state(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int get_num_distinct_backbones(...) from builtins.PyCapsule get_num_distinct_backbones(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int get_num_states_for_aa_type_for_bb(...) from builtins.PyCapsule get_num_states_for_aa_type_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, aa_type : int, bb : int) -> int get_num_states_for_bb(...) from builtins.PyCapsule get_num_states_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, bbconf : int) -> int get_one_body_energy(...) from builtins.PyCapsule get_one_body_energy(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int) -> float get_state_offset_for_bb(...) from builtins.PyCapsule get_state_offset_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, bbconf : int) -> int get_states_on_curr_bb(...) from builtins.PyCapsule get_states_on_curr_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state_list : rosetta.utility.vector1_unsigned_long, offset : int) -> NoneType inform_edges_of_alt_state_before_bbjump(...) from builtins.PyCapsule inform_edges_of_alt_state_before_bbjump(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> bool num_aa_types(...) from builtins.PyCapsule num_aa_types(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int   Read access to private data to both derived classes and the world num_bbconfs(...) from builtins.PyCapsule num_bbconfs(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> int num_states_for_aa_for_bb(...) from builtins.PyCapsule num_states_for_aa_for_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> ObjexxFCL::FArray2D<int> num_states_for_bb(...) from builtins.PyCapsule num_states_for_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_int one_body_energies(...) from builtins.PyCapsule one_body_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_float prepare_for_simulated_annealing(...) from builtins.PyCapsule prepare_for_simulated_annealing(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> NoneType print_internal_energies(...) from builtins.PyCapsule print_internal_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> NoneType set_amino_acid_types(...) from builtins.PyCapsule set_amino_acid_types(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode,  : rosetta.utility.vector1_int) -> NoneType set_closest_states_on_other_bbs(...) from builtins.PyCapsule set_closest_states_on_other_bbs(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode,  : ObjexxFCL::FArray2D<int>) -> NoneType set_num_distinct_backbones(...) from builtins.PyCapsule set_num_distinct_backbones(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, nbbconfs : int) -> NoneType set_num_states_per_backbone(...) from builtins.PyCapsule set_num_states_per_backbone(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode,  : rosetta.utility.vector1_int) -> NoneType state_has_same_backbone_as_current(...) from builtins.PyCapsule state_has_same_backbone_as_current(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int) -> bool state_info(...) from builtins.PyCapsule state_info(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int) -> rosetta.protocols.flexpack.interaction_graph.FlexbbSparseMatrixIndex state_offsets_for_aa_for_bb(...) from builtins.PyCapsule state_offsets_for_aa_for_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> ObjexxFCL::FArray2D<int> state_offsets_for_bb(...) from builtins.PyCapsule state_offsets_for_bb(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> rosetta.utility.vector1_int state_unassigned(...) from builtins.PyCapsule state_unassigned(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> bool update_internal_energy_sums(...) from builtins.PyCapsule update_internal_energy_sums(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> NoneType update_one_body_energy(...) from builtins.PyCapsule update_one_body_energy(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, state : int, energy : float) -> NoneType write_current_state_to_state_array(...) from builtins.PyCapsule write_current_state_to_state_array(self : rosetta.protocols.flexpack.interaction_graph.FlexbbNode, nodes_states : ObjexxFCL::FArray1<int>) -> NoneType zero_one_body_energies(...) from builtins.PyCapsule zero_one_body_energies(rosetta.protocols.flexpack.interaction_graph.FlexbbNode) -> NoneType Methods inherited from rosetta.core.pack.interaction_graph.NodeBase: add_edge(...) from builtins.PyCapsule add_edge(self : rosetta.core.pack.interaction_graph.NodeBase, edge_ptr : core::pack::interaction_graph::EdgeBase) -> std::_List_iterator<core::pack::interaction_graph::EdgeBase*> assign_zero_state(...) from builtins.PyCapsule assign_zero_state(rosetta.core.pack.interaction_graph.NodeBase) -> NoneType count_static_memory(...) from builtins.PyCapsule count_static_memory(rosetta.core.pack.interaction_graph.NodeBase) -> int depth_first_connected_component_counting(...) from builtins.PyCapsule depth_first_connected_component_counting(rosetta.core.pack.interaction_graph.NodeBase) -> NoneType drop_all_edges(...) from builtins.PyCapsule drop_all_edges(rosetta.core.pack.interaction_graph.NodeBase) -> NoneType drop_edge(...) from builtins.PyCapsule drop_edge(self : rosetta.core.pack.interaction_graph.NodeBase, edge_iterator : std::_List_iterator<core::pack::interaction_graph::EdgeBase*>) -> NoneType edge_list_begin(...) from builtins.PyCapsule edge_list_begin(rosetta.core.pack.interaction_graph.NodeBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> edge_list_end(...) from builtins.PyCapsule edge_list_end(rosetta.core.pack.interaction_graph.NodeBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> find_edge(...) from builtins.PyCapsule find_edge(self : rosetta.core.pack.interaction_graph.NodeBase, other_node_index : int) -> core::pack::interaction_graph::EdgeBase get_adjacent_node(...) from builtins.PyCapsule get_adjacent_node(*args, **kwargs) Overloaded function.   1. get_adjacent_node(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> rosetta.core.pack.interaction_graph.NodeBase   2. get_adjacent_node(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> rosetta.core.pack.interaction_graph.NodeBase get_incident_edge(...) from builtins.PyCapsule get_incident_edge(*args, **kwargs) Overloaded function.   1. get_incident_edge(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> core::pack::interaction_graph::EdgeBase   These functions are public for the sake of writing good unit tests   2. get_incident_edge(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> core::pack::interaction_graph::EdgeBase get_index_of_adjacent_node(...) from builtins.PyCapsule get_index_of_adjacent_node(self : rosetta.core.pack.interaction_graph.NodeBase, index : int) -> int get_node_index(...) from builtins.PyCapsule get_node_index(rosetta.core.pack.interaction_graph.NodeBase) -> int get_num_edges_to_larger_indexed_nodes(...) from builtins.PyCapsule get_num_edges_to_larger_indexed_nodes(rosetta.core.pack.interaction_graph.NodeBase) -> int get_num_edges_to_smaller_indexed_nodes(...) from builtins.PyCapsule get_num_edges_to_smaller_indexed_nodes(rosetta.core.pack.interaction_graph.NodeBase) -> int get_num_incident_edges(...) from builtins.PyCapsule get_num_incident_edges(rosetta.core.pack.interaction_graph.NodeBase) -> int get_num_states(...) from builtins.PyCapsule get_num_states(rosetta.core.pack.interaction_graph.NodeBase) -> int   class PrecomputedFlexbbInteractionGraph(FlexbbInteractionGraph)       Method resolution order: PrecomputedFlexbbInteractionGraph FlexbbInteractionGraph rosetta.core.pack.interaction_graph.InteractionGraphBase rosetta.core.pack.interaction_graph.AnnealableGraphBase builtins.object Methods defined here: __init__(self, /, *args, **kwargs) Initialize self.  See help(type(self)) for accurate signature. __new__(*args, **kwargs) from builtins.type Create and return a new object.  See help(type) for accurate signature. Methods inherited from FlexbbInteractionGraph: commit_considered_backbone_move(...) from builtins.PyCapsule commit_considered_backbone_move(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, rotamer_on_node : ObjexxFCL::FArray1<int>) -> float consider_backbone_move(...) from builtins.PyCapsule consider_backbone_move(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bb_id : int, delta_energy : float, prev_flexseg_energy : float, valid_motion : bool, num_nodes_changing_state : int) -> NoneType consider_bbmove_w_state_substitution(...) from builtins.PyCapsule consider_bbmove_w_state_substitution(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node_ind : int, new_state : int, delta_energy : float, prev_energy_for_flexseg : float, valid_motion : bool, num_nodes_changing_state : int) -> NoneType count_dynamic_memory(...) from builtins.PyCapsule count_dynamic_memory(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> int flexseg_members(...) from builtins.PyCapsule flexseg_members(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, flexseg : int) -> rosetta.utility.vector1_unsigned_long get_accessible_states(...) from builtins.PyCapsule get_accessible_states(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, move_mode : rosetta.protocols.flexpack.interaction_graph.Subsitution, rotlist : rosetta.utility.vector1_unsigned_long) -> NoneType get_backbone_currently_assigned(...) from builtins.PyCapsule get_backbone_currently_assigned(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bbid : int) -> bool   Is the backbone conformation (in the global enumertion of backbone conformations) already  assigned to the network?  False if any residue on the flexible segment that this bbid corresponds to  is assigned state 0. get_backbone_list(...) from builtins.PyCapsule get_backbone_list(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bblist : rosetta.utility.vector1_unsigned_long) -> NoneType get_bb_for_state(...) from builtins.PyCapsule get_bb_for_state(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node : int, state : int) -> int get_enforce_bb_contiguity(...) from builtins.PyCapsule get_enforce_bb_contiguity(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> bool   FlexbbNodes will ask: am I allowed to have a state that breaks the backbone?  There are brief periods when the backbone is "broken" as the graph assigns new states to  nodes on the same flexible segment. get_flexseg_bb_offset(...) from builtins.PyCapsule get_flexseg_bb_offset(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, flexseg_id : int) -> int get_flexseg_for_bb(...) from builtins.PyCapsule get_flexseg_for_bb(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, bb : int) -> int get_num_aa_types(...) from builtins.PyCapsule get_num_aa_types(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> int get_num_states_per_backbone_for_node(...) from builtins.PyCapsule get_num_states_per_backbone_for_node(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node : int, bb : int) -> int increment_count_nodes_in_flexseg(...) from builtins.PyCapsule increment_count_nodes_in_flexseg(rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph) -> NoneType   Owner keeps a count of the number of nodes undergoing a  simultaneous rotamer substitution as the backbone moves. initialize(...) from builtins.PyCapsule initialize(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, rot_sets : rosetta.core.pack.rotamer_set.RotamerSetsBase) -> NoneType nodes_from_same_flexseg(...) from builtins.PyCapsule nodes_from_same_flexseg(self : rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph, node1 : int, node2 : int) -> bool Data and other attributes inherited from FlexbbInteractionGraph: BOTH_SC_AND_BB = Subsitution.BOTH_SC_AND_BB SC_ONLY = Subsitution.SC_ONLY Subsitution = <class 'rosetta.protocols.flexpack.interaction_graph.FlexbbInteractionGraph.Subsitution'> Methods inherited from rosetta.core.pack.interaction_graph.InteractionGraphBase: add_edge(...) from builtins.PyCapsule add_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> NoneType add_to_nodes_one_body_energy(...) from builtins.PyCapsule add_to_nodes_one_body_energy(*args, **kwargs) Overloaded function.   1. add_to_nodes_one_body_energy(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, one_body_energies : rosetta.utility.vector1_float) -> NoneType   2. add_to_nodes_one_body_energy(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, one_body_energies : ObjexxFCL::FArray1<float>) -> NoneType   3. add_to_nodes_one_body_energy(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, state_id : int, one_body_energy : float) -> NoneType   interface to PrecomputedPairEnergiesNode::add_to_nodes_one_body_energy add_to_one_body_energies(...) from builtins.PyCapsule add_to_one_body_energies(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, one_body_energies : ObjexxFCL::FArray1<float>) -> NoneType any_vertex_state_unassigned(...) from builtins.PyCapsule any_vertex_state_unassigned(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> bool blanket_assign_state_0(...) from builtins.PyCapsule blanket_assign_state_0(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType commit_considered_substitution(...) from builtins.PyCapsule commit_considered_substitution(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> float consider_substitution(...) from builtins.PyCapsule consider_substitution(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, new_state : int, delta_energy : float, prev_energy_for_node : float) -> NoneType count_connected_components_and_initialize_vertex_groups(...) from builtins.PyCapsule count_connected_components_and_initialize_vertex_groups(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int create_new_edge(...) from builtins.PyCapsule create_new_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, index1 : int, index2 : int) -> rosetta.core.pack.interaction_graph.EdgeBase create_new_node(...) from builtins.PyCapsule create_new_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int, num_states : int) -> rosetta.core.pack.interaction_graph.NodeBase drop_all_edges_for_node(...) from builtins.PyCapsule drop_all_edges_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int) -> NoneType edge_list_iterator_at_end(...) from builtins.PyCapsule edge_list_iterator_at_end(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> bool   test: have we arrived at the edge list end? find_edge(...) from builtins.PyCapsule find_edge(*args, **kwargs) Overloaded function.   1. find_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> rosetta.core.pack.interaction_graph.EdgeBase   The following functions provide access to the nodes and edges in the graph  though, their use is strongly discouraged except for in writing unit tests  to ensure that the graphs are properly implemented.   2. find_edge(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> rosetta.core.pack.interaction_graph.EdgeBase getTotalMemoryUsage(...) from builtins.PyCapsule getTotalMemoryUsage(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_edge(...) from builtins.PyCapsule get_edge(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> rosetta.core.pack.interaction_graph.EdgeBase   return a const reference to an edge pointed at by the list iterator get_edge_exists(...) from builtins.PyCapsule get_edge_exists(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> bool get_edge_list_begin(...) from builtins.PyCapsule get_edge_list_begin(*args, **kwargs) Overloaded function.   1. get_edge_list_begin(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> std::_List_iterator<core::pack::interaction_graph::EdgeBase*>   2. get_edge_list_begin(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> get_edge_list_end(...) from builtins.PyCapsule get_edge_list_end(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> std::_List_const_iterator<core::pack::interaction_graph::EdgeBase*> get_edge_memory_usage(...) from builtins.PyCapsule get_edge_memory_usage(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_edge_weight(...) from builtins.PyCapsule get_edge_weight(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int) -> float get_energy_current_state_assignment(...) from builtins.PyCapsule get_energy_current_state_assignment(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> float get_energy_sum_for_vertex_group(...) from builtins.PyCapsule get_energy_sum_for_vertex_group(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, group_id : int) -> float get_node(...) from builtins.PyCapsule get_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, index : int) -> rosetta.core.pack.interaction_graph.NodeBase get_num_edges(...) from builtins.PyCapsule get_num_edges(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_num_nodes(...) from builtins.PyCapsule get_num_nodes(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_num_states_for_node(...) from builtins.PyCapsule get_num_states_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int) -> int get_num_total_states(...) from builtins.PyCapsule get_num_total_states(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> int get_one_body_energy_for_node_state(...) from builtins.PyCapsule get_one_body_energy_for_node_state(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int, state : int) -> float get_vertex_member_of_energy_sum_group(...) from builtins.PyCapsule get_vertex_member_of_energy_sum_group(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int, group_id : int) -> bool increment_edge_list_iterator(...) from builtins.PyCapsule increment_edge_list_iterator(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType   increment the (single) edge list iterator to the next element note_vertex_reached(...) from builtins.PyCapsule note_vertex_reached(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int) -> NoneType prepare_for_simulated_annealing(...) from builtins.PyCapsule prepare_for_simulated_annealing(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType   iterate across edges and nodes and allow them to prepare  for simulated annealing print(...) from builtins.PyCapsule print(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType print_current_state_assignment(...) from builtins.PyCapsule print_current_state_assignment(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType print_vertex_groups(...) from builtins.PyCapsule print_vertex_groups(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType print_vertices(...) from builtins.PyCapsule print_vertices(rosetta.core.pack.interaction_graph.InteractionGraphBase) -> NoneType reset_edge_list_iterator_for_node(...) from builtins.PyCapsule reset_edge_list_iterator_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int) -> NoneType   set the Graph's (single) edge list iterator to the beginning of the edge list  for a particular node set_edge_weight(...) from builtins.PyCapsule set_edge_weight(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node1 : int, node2 : int, edge_weight : float) -> NoneType set_errorfull_deltaE_threshold(...) from builtins.PyCapsule set_errorfull_deltaE_threshold(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, deltaE : float) -> NoneType set_network_state(...) from builtins.PyCapsule set_network_state(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_states : ObjexxFCL::FArray1<int>) -> float set_num_states_for_node(...) from builtins.PyCapsule set_num_states_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int, num_states : int) -> NoneType set_number_of_energy_sum_vertex_groups(...) from builtins.PyCapsule set_number_of_energy_sum_vertex_groups(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, num_groups : int) -> NoneType set_state_for_node(...) from builtins.PyCapsule set_state_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_ind : int, new_state : int) -> float set_vertex_member_of_group(...) from builtins.PyCapsule set_vertex_member_of_group(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, vertex : int, group : int) -> NoneType update_one_body_energies(...) from builtins.PyCapsule update_one_body_energies(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, old_energy1b : ObjexxFCL::FArray1<float>, new_energy1b : ObjexxFCL::FArray1<float>) -> NoneType vertex_already_reached(...) from builtins.PyCapsule vertex_already_reached(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node_index : int) -> bool zero_one_body_energies_for_node(...) from builtins.PyCapsule zero_one_body_energies_for_node(self : rosetta.core.pack.interaction_graph.InteractionGraphBase, node : int) -> NoneType Methods inherited from rosetta.core.pack.interaction_graph.AnnealableGraphBase: assign(...) from builtins.PyCapsule assign(self : rosetta.core.pack.interaction_graph.AnnealableGraphBase,  : rosetta.core.pack.interaction_graph.AnnealableGraphBase) -> rosetta.core.pack.interaction_graph.AnnealableGraphBase