* checking for file 'RBGL/DESCRIPTION' ... OK
* preparing 'RBGL':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* running cleanup
removing exploded boost header source...
* installing the package to re-build vignettes
* Installing *source* package 'RBGL' ...
untarring boost include tree...
** libs
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c bbc.cpp -o bbc.o
boostIncl/boost/graph/dijkstra_shortest_paths.hpp: In function 'void boost::detail::dijkstra_dispatch2(const VertexListGraph&, typename boost::graph_traits::vertex_descriptor, DistanceMap, WeightMap, IndexMap, const Params&, ColorMap) [with VertexListGraph = boost::adjacency_list >, boost::property >, boost::no_property, boost::listS>, DistanceMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator > >, boost::vec_adj_list_vertex_id_map >, size_t>, double, double&>, WeightMap = boost::adj_list_edge_property_map >, boost::edge_weight_t>, IndexMap = boost::vec_adj_list_vertex_id_map >, size_t>, Params = boost::bgl_named_params >, boost::property >, boost::no_property, boost::listS>, boost::adj_list_edge_property_map >, boost::edge_weight_t>, boost::iterator_property_map<__gnu_cxx::__normal_iterator, std::allocator > >*, std::vector, std::allocator > >, std::allocator, std::allocator > > > > >, boost::vec_adj_list_vertex_id_map >, size_t>, std::vector, std::allocator > >, std::vector, std::allocator > >&>, boost::iterator_property_map<__gnu_cxx::__normal_iterator > >, boost::vec_adj_list_vertex_id_map >, size_t>, double, double&>, boost::iterator_property_map<__gnu_cxx::__normal_iterator > >, boost::vec_adj_list_vertex_id_map >, size_t>, size_t, size_t&> >, boost::graph_visitor_t, boost::bgl_named_params > >, boost::vec_adj_list_vertex_id_map >, size_t>, double, double&>, boost::vertex_distance_t, boost::bgl_named_params >, size_t>, boost::vertex_index_t, boost::bgl_named_params >, boost::edge_weight_t>, boost::edge_weight_t, boost::no_property> > > >, ColorMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator > >, boost::vec_adj_list_vertex_id_map >, size_t>, boost::default_color_type, boost::default_color_type&>]':
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:80: warning: 'bfs_vis$m_decreased' is used uninitialized in this function
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c cliques.cpp -o cliques.o
cliques.cpp: In function 'void print_one_clique(oneCliqueType&)':
cliques.cpp:110: warning: comparison between signed and unsigned integer expressions
cliques.cpp: In function 'void print_all_cliques(allCliquesType&, char*)':
cliques.cpp:118: warning: comparison between signed and unsigned integer expressions
cliques.cpp: In function 'void extend_v2(Graph_ud&, std::vector >&, std::vector >&, int, int, int&, allCliquesType&)':
cliques.cpp:138: warning: 'fixp' may be used uninitialized in this function
cliques.cpp:139: warning: 's' may be used uninitialized in this function
cliques.cpp:139: warning: 'pos' may be used uninitialized in this function
cliques.cpp: At global scope:
cliques.cpp:115: warning: 'void print_all_cliques(allCliquesType&, char*)' defined but not used
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c clusteringCoef.cpp -o clusteringCoef.o
clusteringCoef.cpp: In function 'int findIndex(int, const std::vector >&)':
clusteringCoef.cpp:132: warning: comparison between signed and unsigned integer expressions
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c hcs.cpp -o hcs.o
hcs.cpp: In function 'void output_graph_labels(const V_Label&, const char*)':
hcs.cpp:27: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'void build_subgraph(Cluster&, const Graph_ud&, const V_Label&, Graph_ud&, V_Label&)':
hcs.cpp:62: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'void remove_vertices(int, const Graph_ud&, const V_Label&, Graph_ud&, V_Label&)':
hcs.cpp:117: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'dst cluster_distance(const Graph_ud&, V_Label&, int, V_Label&)':
hcs.cpp:134: warning: comparison between signed and unsigned integer expressions
hcs.cpp:138: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'void adopt_singleton(const Graph_ud&, V_Label&, ClusterResult&)':
hcs.cpp:206: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'void remove_clusters(ClusterResult&, const Graph_ud&, const V_Label&, Graph_ud&, V_Label&)':
hcs.cpp:248: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'void HCS_internal(const Graph_ud&, V_Label&, ClusterResult&)':
hcs.cpp:288: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'SEXPREC* HCS_loop(Graph_ud&, V_Label&)':
hcs.cpp:363: warning: comparison between signed and unsigned integer expressions
hcs.cpp:393: warning: comparison between signed and unsigned integer expressions
hcs.cpp:397: warning: comparison between signed and unsigned integer expressions
hcs.cpp:353: warning: unused variable 'found_new_cluster'
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list > >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D96084$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D96084$D96049$m_value$D93878$m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D96084$D96049$m_value$D93878$m_source' is used uninitialized in this function
boostIncl/boost/graph/edge_connectivity.hpp: In function 'typename boost::graph_traits::edges_size_type boost::min_cut(VertexListGraph&, OutputIterator, OutputIterator) [with VertexListGraph = const R_adjacency_list, OutputIterator = std::back_insert_iterator]':
boostIncl/boost/graph/edge_connectivity.hpp:32: warning: 'p' may be used uninitialized in this function
hcs.cpp: At global scope:
hcs.cpp:24: warning: 'void output_graph_labels(const V_Label&, const char*)' defined but not used
hcs.cpp:32: warning: 'void output_graph(const Graph_ud&, const char*)' defined but not used
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c incrConnComp.cpp -o incrConnComp.o
incrConnComp.cpp: In function 'SEXPREC* BGL_incr_comp_internal(SEXPREC*, SEXPREC*, SEXPREC*, E_IC_METHOD)':
incrConnComp.cpp:67: warning: comparison between signed and unsigned integer expressions
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c interfaces.cpp -o interfaces.o
interfaces.cpp: In function 'SEXPREC* BGL_articulation_points_U(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
interfaces.cpp:310: warning: comparison between signed and unsigned integer expressions
interfaces.cpp: In function 'SEXPREC* BGL_astar_search_D(SEXPREC*, SEXPREC*, SEXPREC*)':
interfaces.cpp:405: warning: 'ansList' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list > >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D100582$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D100582$D100547$m_value$D80600$m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D100582$D100547$m_value$D80600$m_source' is used uninitialized in this function
boostIncl/boost/graph/edge_connectivity.hpp: In function 'typename boost::graph_traits::degree_size_type boost::edge_connectivity(VertexListGraph&, OutputIterator) [with VertexListGraph = Graph_ud, OutputIterator = std::back_insert_iterator > >]':
boostIncl/boost/graph/edge_connectivity.hpp:32: warning: 'p' may be used uninitialized in this function
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c layout.cpp -o layout.o
layout.cpp: In function 'SEXPREC* BGL_gursov_atun_layout(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
layout.cpp:219: warning: unused variable 'w'
layout.cpp:220: warning: unused variable 'h'
boostIncl/boost/graph/fruchterman_reingold.hpp: In function 'void boost::fruchterman_reingold_force_directed_layout(const Graph&, PositionMap, Dim, Dim, AttractiveForce, RepulsiveForce, ForcePairs, Cooling, DisplacementMap) [with Graph = boost::adjacency_list, boost::no_property> >, boost::property, boost::no_property, boost::listS>, PositionMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&>, Dim = double, AttractiveForce = boost::square_distance_attractive_force, RepulsiveForce = boost::square_distance_repulsive_force, ForcePairs = boost::grid_force_pairs*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&> >, Cooling = boost::linear_cooling, DisplacementMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&>]':
boostIncl/boost/graph/fruchterman_reingold.hpp:366: instantiated from 'static void boost::detail::fr_force_directed_layout::run(const Graph&, PositionMap, Dim, Dim, AttractiveForce, RepulsiveForce, ForcePairs, Cooling, boost::detail::error_property_not_found, const boost::bgl_named_params&) [with Graph = boost::adjacency_list, boost::no_property> >, boost::property, boost::no_property, boost::listS>, PositionMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&>, Dim = double, AttractiveForce = boost::square_distance_attractive_force, RepulsiveForce = boost::square_distance_repulsive_force, ForcePairs = boost::grid_force_pairs*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&> >, Cooling = boost::linear_cooling, Param = boost::square_distance_attractive_force, Tag = boost::attractive_force_t, Rest = boost::no_property]'
boostIncl/boost/graph/fruchterman_reingold.hpp:392: instantiated from 'void boost::fruchterman_reingold_force_directed_layout(const Graph&, PositionMap, Dim, Dim, const boost::bgl_named_params&) [with Graph = boost::adjacency_list, boost::no_property> >, boost::property, boost::no_property, boost::listS>, PositionMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&>, Dim = double, Param = boost::square_distance_attractive_force, Tag = boost::attractive_force_t, Rest = boost::no_property]'
boostIncl/boost/graph/fruchterman_reingold.hpp:413: instantiated from 'void boost::fruchterman_reingold_force_directed_layout(const Graph&, PositionMap, Dim, Dim) [with Graph = IndexGraph, PositionMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&>, Dim = double]'
layout.cpp:187: instantiated from here
boostIncl/boost/graph/fruchterman_reingold.hpp:312: warning: suggest parentheses around assignment used as truth value
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list, boost::property >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen, boost::property >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::property, boost::property >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper, boost::property >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::property, boost::property >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D106389$m_value' is used uninitialized in this function
boostIncl/boost/graph/dijkstra_shortest_paths.hpp: In function 'void boost::dijkstra_shortest_paths(const VertexListGraph&, typename boost::graph_traits::vertex_descriptor, PredecessorMap, DistanceMap, WeightMap, IndexMap, Compare, Combine, DistInf, DistZero, DijkstraVisitor) [with VertexListGraph = boost::adjacency_list, boost::property >, boost::no_property, boost::listS>, DijkstraVisitor = boost::dijkstra_visitor, PredecessorMap = boost::dummy_property_map, DistanceMap = boost::vec_adj_list_vertex_property_map, boost::property >, boost::no_property, boost::listS>, boost::adjacency_list, boost::property >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, WeightMap = boost::adj_list_edge_property_map >, boost::edge_weight2_t>, IndexMap = boost::vec_adj_list_vertex_id_map, size_t>, Compare = std::less, Combine = boost::closed_plus, DistInf = double, DistZero = double]':
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:80: warning: 'bfs_vis$m_decreased' is used uninitialized in this function
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c mincut.cpp -o mincut.o
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list > >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D79638$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D79638$D79603$m_value$D77237$m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D79638$D79603$m_value$D77237$m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list > >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D93741$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D93741$D93706$m_value$D77237$m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D93741$D93706$m_value$D77237$m_source' is used uninitialized in this function
boostIncl/boost/graph/edge_connectivity.hpp: In function 'typename boost::graph_traits::edges_size_type boost::min_cut(VertexListGraph&, OutputIterator, OutputIterator) [with VertexListGraph = Graph_ud, OutputIterator = std::back_insert_iterator > >]':
boostIncl/boost/graph/edge_connectivity.hpp:32: warning: 'p' may be used uninitialized in this function
boostIncl/boost/graph/push_relabel_max_flow.hpp: In member function 'void boost::detail::push_relabel::discharge(typename boost::graph_traits::vertex_descriptor) [with Graph = boost::adjacency_list > >, boost::no_property, boost::listS>, EdgeCapacityMap = boost::adj_list_edge_property_map > >, boost::edge_capacity_t>, ResidualCapacityEdgeMap = boost::adj_list_edge_property_map > >, boost::edge_residual_capacity_t>, ReverseEdgeMap = boost::adj_list_edge_property_map > >, boost::edge_reverse_t>, VertexIndexMap = boost::vec_adj_list_vertex_id_map, FlowValue = double]':
boostIncl/boost/graph/push_relabel_max_flow.hpp:340: warning: 'min_edge_iter$m_src' may be used uninitialized in this function
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c minST.cpp -o minST.o
minST.cpp: In function 'SEXPREC* BGL_PRIM_U(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
minST.cpp:99: warning: comparison between signed and unsigned integer expressions
minST.cpp:103: warning: comparison between signed and unsigned integer expressions
minST.cpp:93: warning: unused variable 'vlist'
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c ordering.cpp -o ordering.o
ordering.cpp: In function 'SEXPREC* BGL_king_ordering(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
ordering.cpp:172: warning: unused variable 'delta'
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c shortestPath.cpp -o shortestPath.o
shortestPath.cpp: In function 'SEXPREC* BGL_bellman_ford_shortest_paths(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
shortestPath.cpp:79: warning: unused variable 'j'
shortestPath.cpp: In function 'SEXPREC* BGL_floyd_warshall_all_pairs_shortest_paths_D(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
shortestPath.cpp:180: warning: unused variable 'V'
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list, boost::property >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen, boost::property >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::property, boost::property >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper, boost::property >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::property, boost::property >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D99177$m_value' is used uninitialized in this function
boostIncl/boost/graph/dijkstra_shortest_paths.hpp: In function 'void boost::dijkstra_shortest_paths(const VertexListGraph&, typename boost::graph_traits::vertex_descriptor, PredecessorMap, DistanceMap, WeightMap, IndexMap, Compare, Combine, DistInf, DistZero, DijkstraVisitor) [with VertexListGraph = boost::adjacency_list, boost::property >, boost::no_property, boost::listS>, DijkstraVisitor = boost::dijkstra_visitor, PredecessorMap = boost::dummy_property_map, DistanceMap = boost::vec_adj_list_vertex_property_map, boost::property >, boost::no_property, boost::listS>, boost::adjacency_list, boost::property >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, WeightMap = boost::adj_list_edge_property_map >, boost::edge_weight2_t>, IndexMap = boost::vec_adj_list_vertex_id_map, size_t>, Compare = std::less, Combine = boost::closed_plus, DistInf = double, DistZero = double]':
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:80: warning: 'bfs_vis$m_decreased' is used uninitialized in this function
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c sna.cpp -o sna.o
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list > >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D87480$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D87480$D87445$m_value$D85787$m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D87480$D87445$m_value$D85787$m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list, boost::property >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen, boost::property >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::property, boost::property >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper, boost::property >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::property, boost::property >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p$D99819$m_value' is used uninitialized in this function
boostIncl/boost/graph/dijkstra_shortest_paths.hpp: In function 'void boost::dijkstra_shortest_paths(const VertexListGraph&, typename boost::graph_traits::vertex_descriptor, PredecessorMap, DistanceMap, WeightMap, IndexMap, Compare, Combine, DistInf, DistZero, DijkstraVisitor) [with VertexListGraph = boost::adjacency_list, boost::property >, boost::no_property, boost::listS>, DijkstraVisitor = boost::dijkstra_visitor, PredecessorMap = boost::dummy_property_map, DistanceMap = boost::vec_adj_list_vertex_property_map, boost::property >, boost::no_property, boost::listS>, boost::adjacency_list, boost::property >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, WeightMap = boost::adj_list_edge_property_map >, boost::edge_weight2_t>, IndexMap = boost::vec_adj_list_vertex_id_map, size_t>, Compare = std::less, Combine = boost::closed_plus, DistInf = double, DistZero = double]':
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:80: warning: 'bfs_vis$m_decreased' is used uninitialized in this function
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c transitive_closure.cpp -o transitive_closure.o
g++ -I/home/biocbuild/1.9d/R/include -I/home/biocbuild/1.9d/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c wavefront.cpp -o wavefront.o
g++ -shared -L/usr/local/lib64 -o RBGL.so bbc.o cliques.o clusteringCoef.o hcs.o incrConnComp.o interfaces.o layout.o mincut.o minST.o ordering.o shortestPath.o sna.o transitive_closure.o wavefront.o
** R
** data
** inst
** save image
Loading required package: graph
** help
>>> Building/Updating help pages for package 'RBGL'
Formats: text html latex example
FileDep text html latex example
RBGL.overview text html latex
astarSearch text html latex example
bandwidth text html latex example
bccluster text html latex example
bellman.ford.sp text html latex example
betweenness text html latex example
bfs text html latex example
biConnComp text html latex example
clusteringCoef text html latex example
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coloring text html latex example
connectedComp text html latex example
dag.sp text html latex example
dijkstra.sp text html latex example
edgeConn text html latex example
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floyd.warshall.all.pairs.sp text html latex example
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graphGenerator text html latex example
highlyConnSG text html latex example
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is.triangulated text html latex example
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johnson.all.pairs.sp text html latex example
kCliques text html latex example
kCores text html latex example
lambdaSets text html latex example
layout text html latex example
maxClique text html latex example
maxFlow text html latex example
minCut text html latex example
mstree.kruskal text html latex example
ordering text html latex example
prim.minST text html latex example
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transClosure text html latex example
transitivity text html latex example
tsort text html latex example
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** building package indices ...
* DONE (RBGL)
* creating vignettes ... OK
* cleaning src
* running cleanup
removing exploded boost header source...
* removing junk files
* checking for LF line-endings in source files
* checking for empty or unneeded directories
* building 'RBGL_1.10.0.tar.gz'