* installing *source* package ‘RBGL’ ...
untarring boost include tree...
** libs
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c bbc.cpp -o bbc.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from bbc.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c cliques.cpp -o cliques.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from cliques.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c clusteringCoef.cpp -o clusteringCoef.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from clusteringCoef.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
clusteringCoef.cpp: In function ‘SEXPREC* graphGenerator(SEXPREC*, SEXPREC*, SEXPREC*)’:
clusteringCoef.cpp:394:40: warning: ‘u’ may be used uninitialized in this function
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c dominatorTree.cpp -o dominatorTree.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from dominatorTree.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c edmonds_optimum_branching.cpp -o edmonds_optimum_branching.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from edmonds_optimum_branching.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c hcs.cpp -o hcs.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from hcs.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c incrConnComp.cpp -o incrConnComp.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from incrConnComp.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c interfaces.cpp -o interfaces.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from interfaces.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c layout.cpp -o layout.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from layout.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
layout.cpp: In function ‘SEXPREC* BGL_layout_internal(E_LAYOUT_METHOD, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)’:
layout.cpp:116:20: warning: unused variable ‘r’
layout.cpp:117:20: warning: unused variable ‘w’
layout.cpp:118:20: warning: unused variable ‘h’
In file included from layout.cpp:9:0:
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::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >, PositionMap = boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >*, boost::simple_point<double>, boost::simple_point<double>&, vertex_position_t>, Dim = double, AttractiveForce = boost::square_distance_attractive_force, RepulsiveForce = boost::square_distance_repulsive_force, ForcePairs = boost::grid_force_pairs<double, boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >*, boost::simple_point<double>, boost::simple_point<double>&, vertex_position_t> >, Cooling = boost::linear_cooling<double>, DisplacementMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<boost::simple_point<double>*, std::vector<boost::simple_point<double>, std::allocator<boost::simple_point<double> > > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, long unsigned int>, boost::simple_point<double>, boost::simple_point<double>&>]’:
fruchterman_reingold.hpp:423:7: instantiated from ‘static void boost::detail::fr_force_directed_layout<boost::detail::error_property_not_found>::run(const Graph&, PositionMap, Dim, Dim, AttractiveForce, RepulsiveForce, ForcePairs, Cooling, boost::detail::error_property_not_found, const boost::bgl_named_params<Param, Tag, Rest>&) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >, PositionMap = boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >*, boost::simple_point<double>, boost::simple_point<double>&, vertex_position_t>, Dim = double, AttractiveForce = boost::square_distance_attractive_force, RepulsiveForce = boost::square_distance_repulsive_force, ForcePairs = boost::grid_force_pairs<double, boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >*, boost::simple_point<double>, boost::simple_point<double>&, vertex_position_t> >, Cooling = boost::linear_cooling<double>, Param = boost::square_distance_attractive_force, Tag = boost::attractive_force_t, Rest = boost::no_property]’
fruchterman_reingold.hpp:449:3: instantiated from ‘void boost::fruchterman_reingold_force_directed_layout(const Graph&, PositionMap, Dim, Dim, const boost::bgl_named_params<P, T, R>&) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >, PositionMap = boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >*, boost::simple_point<double>, boost::simple_point<double>&, vertex_position_t>, Dim = double, Param = boost::square_distance_attractive_force, Tag = boost::attractive_force_t, Rest = boost::no_property]’
fruchterman_reingold.hpp:470:3: instantiated from ‘void boost::fruchterman_reingold_force_directed_layout(const Graph&, PositionMap, Dim, Dim) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >, PositionMap = boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double> > >, boost::property<boost::edge_weight_t, double> >*, boost::simple_point<double>, boost::simple_point<double>&, vertex_position_t>, Dim = double]’
layout.cpp:112:66: instantiated from here
fruchterman_reingold.hpp:354:7: warning: suggest parentheses around assignment used as truth value
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c minST.cpp -o minST.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from minST.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c mincut.cpp -o mincut.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from mincut.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c ordering.cpp -o ordering.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from ordering.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c planar.cpp -o planar.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from planar.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
planar.cpp: In function ‘SEXPREC* planarFaceTraversal(SEXPREC*, SEXPREC*, SEXPREC*)’:
planar.cpp:151:45: warning: comparison between signed and unsigned integer expressions
planar.cpp:153:53: warning: comparison between signed and unsigned integer expressions
planar.cpp:161:50: warning: comparison between signed and unsigned integer expressions
planar.cpp:165:58: warning: comparison between signed and unsigned integer expressions
planar.cpp: In function ‘SEXPREC* planarCanonicalOrdering(SEXPREC*, SEXPREC*, SEXPREC*)’:
planar.cpp:256:40: warning: comparison between signed and unsigned integer expressions
planar.cpp: In function ‘SEXPREC* isStraightLineDrawing(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)’:
planar.cpp:369:44: warning: comparison between signed and unsigned integer expressions
planar.cpp: In function ‘SEXPREC* isKuratowskiSubgraph(SEXPREC*, SEXPREC*, SEXPREC*)’:
planar.cpp:461:6: warning: unused variable ‘i’
planar.cpp: In function ‘SEXPREC* makeConnected(SEXPREC*, SEXPREC*, SEXPREC*)’:
planar.cpp:485:42: warning: comparison between signed and unsigned integer expressions
planar.cpp: In function ‘SEXPREC* makeBiconnectedPlanar(SEXPREC*, SEXPREC*, SEXPREC*)’:
planar.cpp:539:45: warning: comparison between signed and unsigned integer expressions
In file included from planar.cpp:5:0:
boostIncl/boost/graph/planar_canonical_ordering.hpp: In function ‘void boost::planar_canonical_ordering(const Graph&, PlanarEmbedding, OutputIterator, VertexIndexMap) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int>, boost::property<boost::edge_index_t, int> >, PlanarEmbedding = boost::iterator_property_map<__gnu_cxx::__normal_iterator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, long unsigned int> >*, std::vector<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, long unsigned int> > > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int>, long unsigned int> >, OutputIterator = std::back_insert_iterator<std::vector<long unsigned int> >, VertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int>, long unsigned int>]’:
boostIncl/boost/graph/planar_canonical_ordering.hpp:68:14: warning: ‘second_vertex’ may be used uninitialized in this function
In file included from planar.cpp:6:0:
boostIncl/boost/graph/chrobak_payne_drawing.hpp: In function ‘void boost::chrobak_payne_straight_line_drawing(const Graph&, PlanarEmbedding, ForwardIterator, ForwardIterator, GridPositionMap, VertexIndexMap) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int>, boost::property<boost::edge_index_t, int> >, PlanarEmbedding = boost::iterator_property_map<__gnu_cxx::__normal_iterator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, long unsigned int> >*, std::vector<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, long unsigned int> > > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int>, long unsigned int> >, ForwardIterator = __gnu_cxx::__normal_iterator<long unsigned int*, std::vector<long unsigned int> >, GridPositionMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<coord_t*, std::vector<coord_t> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int>, long unsigned int> >, VertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int>, long unsigned int>]’:
boostIncl/boost/graph/chrobak_payne_drawing.hpp:208:22: warning: ‘next_to_rightmost’ may be used uninitialized in this function
In file included from planar.cpp:11:0:
boostIncl/boost/graph/max_cardinality_matching.hpp: In member function ‘bool boost::edmonds_augmenting_path_finder<Graph, MateMap, VertexIndexMap>::augment_matching() [with Graph = R_adjacency_list<boost::undirectedS, int>, MateMap = long unsigned int*, VertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type>, long unsigned int>]’:
boostIncl/boost/graph/max_cardinality_matching.hpp:231:27: warning: ‘v’ may be used uninitialized in this function
boostIncl/boost/graph/max_cardinality_matching.hpp:231:29: warning: ‘w’ may be used uninitialized in this function
In file included from boostIncl/boost/graph/boyer_myrvold_planar_test.hpp:12:0,
from planar.cpp:3:
boostIncl/boost/graph/planar_detail/boyer_myrvold_impl.hpp: In member function ‘void boost::boyer_myrvold_impl<Graph, VertexIndexMap, StoreOldHandlesPolicy, StoreEmbeddingPolicy>::extract_kuratowski_subgraph(OutputIterator, EdgeIndexMap) [with OutputIterator = std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, long unsigned int> > >, EdgeIndexMap = boost::adj_list_edge_property_map<boost::undirected_tag, int, int&, long unsigned int, boost::property<boost::edge_index_t, int>, boost::edge_index_t>, Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int>, boost::property<boost::edge_index_t, int> >, VertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int>, long unsigned int>, StoreOldHandlesPolicy = boost::graph::detail::store_old_handles, StoreEmbeddingPolicy = boost::graph::detail::no_embedding]’:
boostIncl/boost/graph/planar_detail/boyer_myrvold_impl.hpp:1279:16: warning: ‘previous_vertex’ may be used uninitialized in this function
boostIncl/boost/graph/planar_detail/boyer_myrvold_impl.hpp:1238:16: warning: ‘bicomp_root’ may be used uninitialized in this function
boostIncl/boost/graph/planar_detail/boyer_myrvold_impl.hpp:1237:16: warning: ‘z’ may be used uninitialized in this function
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c shortestPath.cpp -o shortestPath.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from shortestPath.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c sna.cpp -o sna.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from sna.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c transitive_closure.cpp -o transitive_closure.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from transitive_closure.cpp:16:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -Wall -c wavefront.cpp -o wavefront.o
In file included from /usr/include/c++/4.5/backward/hash_set:60:0,
from boostIncl/boost/graph/adjacency_list.hpp:25,
from RBGL.hpp:26,
from wavefront.cpp:1:
/usr/include/c++/4.5/backward/backward_warning.h:28:2: warning: #warning This file includes at least one deprecated or antiquated header which may be removed without further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
g++ -shared -L/usr/local/lib64 -o RBGL.so bbc.o cliques.o clusteringCoef.o dominatorTree.o edmonds_optimum_branching.o hcs.o incrConnComp.o interfaces.o layout.o minST.o mincut.o ordering.o planar.o shortestPath.o sna.o transitive_closure.o wavefront.o -L/home/biocbuild/bbs-2.9-bioc/R/lib -lR
installing to /loc/home/biocbuild/bbs-2.9-bioc/meat/RBGL.Rcheck/RBGL/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
‘RBGL.Rnw’
** testing if installed package can be loaded
* DONE (RBGL)