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Package 196/264HostnameOS / ArchBUILDCHECKBUILD BIN
RBGL 1.15.7
Li Long
Snapshot Date: 2008-04-09 00:13:10 -0700 (Wed, 09 Apr 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/RBGL
Last Changed Rev: 29178 / Revision: 30951
Last Changed Date: 2007-12-12 07:08:55 -0800 (Wed, 12 Dec 2007)
lamb1 Linux (SUSE 10.1) / x86_64  OK  WARNINGS 
wilson2 Linux (openSUSE 10.3) / x86_64  OK  WARNINGS 
wellington Linux (openSUSE 10.3) / i686 [ OK ] WARNINGS 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  WARNINGS  OK 
pelham Mac OS X Leopard (10.5.1) / i386  ERROR  skipped  skipped 
Package: RBGL
Version: 1.15.7
Command: /home/biocbuild/bbs-2.2-bioc/R/bin/R CMD build RBGL
StartedAt: 2008-04-09 03:39:53 -0700 (Wed, 09 Apr 2008)
EndedAt: 2008-04-09 03:43:24 -0700 (Wed, 09 Apr 2008)
EllapsedTime: 210.9 seconds
RetCode: 0
Status: OK
PackageFile: RBGL_1.15.7.tar.gz
PackageFileSize: 1.268 MiB

Command output

* 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/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/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<G>::vertex_descriptor, DistanceMap, WeightMap, IndexMap, const Params&, ColorMap) [with VertexListGraph = boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double, boost::no_property> >, boost::no_property, boost::listS>, DistanceMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, double, double&>, WeightMap = boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double, boost::no_property> >, boost::edge_weight_t>, IndexMap = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, Params = boost::bgl_named_params<boost::detail::graph::brandes_dijkstra_visitor<const boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double, boost::no_property> >, boost::edge_weight_t>, boost::iterator_property_map<__gnu_cxx::__normal_iterator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >*, std::vector<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >, std::allocator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > > > > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >, std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >&>, boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, double, double&>, boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int, std::allocator<unsigned int> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, unsigned int, unsigned int&> >, boost::graph_visitor_t, boost::bgl_named_params<boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, double, double&>, boost::vertex_distance_t, boost::bgl_named_params<boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, boost::vertex_index_t, boost::bgl_named_params<boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double, boost::no_property> >, boost::edge_weight_t>, boost::edge_weight_t, boost::no_property> > > >, ColorMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<boost::default_color_type*, std::vector<boost::default_color_type, std::allocator<boost::default_color_type> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, boost::default_color_type, boost::default_color_type&>]':
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:81: warning: 'bfs_vis.boost::detail::dijkstra_bfs_visitor<boost::detail::graph::brandes_dijkstra_visitor<const boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double, boost::no_property> >, boost::edge_weight_t>, boost::iterator_property_map<__gnu_cxx::__normal_iterator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >*, std::vector<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >, std::allocator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > > > > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >, std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >&>, boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, double, double&>, boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int, std::allocator<unsigned int> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, unsigned int, unsigned int&> >, boost::relaxed_heap<unsigned int, boost::indirect_cmp<boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, double, double&>, std::less<double> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int> >, boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double, boost::no_property> >, boost::edge_weight_t>, boost::dummy_property_map, boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, double, double&>, boost::closed_plus<double>, std::less<double> >::m_decreased' is used uninitialized in this function
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:205: note: 'bfs_vis.boost::detail::dijkstra_bfs_visitor<boost::detail::graph::brandes_dijkstra_visitor<const boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double, boost::no_property> >, boost::edge_weight_t>, boost::iterator_property_map<__gnu_cxx::__normal_iterator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >*, std::vector<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >, std::allocator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > > > > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >, std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > >&>, boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, double, double&>, boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int, std::allocator<unsigned int> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, unsigned int, unsigned int&> >, boost::relaxed_heap<unsigned int, boost::indirect_cmp<boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, double, double&>, std::less<double> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int> >, boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_centrality_t, double, boost::no_property> >, boost::edge_weight_t>, boost::dummy_property_map, boost::iterator_property_map<__gnu_cxx::__normal_iterator<double*, std::vector<double, std::allocator<double> > >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_centrality_t, double, boost::no_property> >, unsigned int>, double, double&>, boost::closed_plus<double>, std::less<double> >::m_decreased' was declared here
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c cliques.cpp -o cliques.o
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c clusteringCoef.cpp -o clusteringCoef.o
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c dominatorTree.cpp -o dominatorTree.o
boostIncl/boost/property_map.hpp: In constructor 'boost::detail::dominator_visitor<Graph, IndexMap, TimeMap, PredMap, DomTreePredMap>::dominator_visitor(const Graph&, const typename boost::graph_traits<Graph>::vertex_descriptor&, DomTreePredMap) [with Graph = boost::adjacency_list<boost::vecS, boost::listS, boost::bidirectionalS, boost::property<boost::vertex_index_t, int, boost::no_property>, boost::no_property, boost::no_property, boost::listS>, IndexMap = boost::adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::listS, boost::bidirectionalS, boost::property<boost::vertex_index_t, int, boost::no_property>, boost::no_property, boost::no_property, boost::listS>, int, const int&, boost::vertex_index_t>, TimeMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<unsigned int*, std::vector<unsigned int, std::allocator<unsigned int> > >, boost::adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::listS, boost::bidirectionalS, boost::property<boost::vertex_index_t, int, boost::no_property>, boost::no_property, boost::no_property, boost::listS>, int, const int&, boost::vertex_index_t>, unsigned int, unsigned int&>, PredMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<void**, std::vector<void*, std::allocator<void*> > >, boost::adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::listS, boost::bidirectionalS, boost::property<boost::vertex_index_t, int, boost::no_property>, boost::no_property, boost::no_property, boost::listS>, int, const int&, boost::vertex_index_t>, void*, void*&>, DomTreePredMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator<void**, std::vector<void*, std::allocator<void*> > >, boost::adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::listS, boost::bidirectionalS, boost::property<boost::vertex_index_t, int, boost::no_property>, boost::no_property, boost::no_property, boost::listS>, int, int&, boost::vertex_index_t>, void*, void*&>]':
boostIncl/boost/property_map.hpp:348: warning: 'this.263' is used uninitialized in this function
boostIncl/boost/property_map.hpp:348: note: 'this.263' was declared here
boostIncl/boost/property_map.hpp:348: warning: 'this.263' is used uninitialized in this function
boostIncl/boost/property_map.hpp:348: note: 'this.263' was declared here
boostIncl/boost/property_map.hpp:348: warning: 'this.263' is used uninitialized in this function
boostIncl/boost/property_map.hpp:348: note: 'this.263' was declared here
boostIncl/boost/property_map.hpp:348: warning: 'this.466' is used uninitialized in this function
boostIncl/boost/property_map.hpp:348: note: 'this.466' was declared here
boostIncl/boost/property_map.hpp:348: warning: 'this.263' is used uninitialized in this function
boostIncl/boost/property_map.hpp:348: note: 'this.263' was declared here
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c hcs.cpp -o hcs.o
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'typename boost::graph_traits<G>::edges_size_type boost::min_cut(VertexListGraph&, OutputIterator, OutputIterator) [with VertexListGraph = const R_adjacency_list<boost::undirectedS, double>, OutputIterator = std::back_insert_iterator<std::vector<unsigned int, std::allocator<unsigned int> > >]':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' was declared here
boostIncl/boost/graph/edge_connectivity.hpp:32: warning: 'p' may be used uninitialized in this function
boostIncl/boost/graph/edge_connectivity.hpp:32: note: 'p' was declared here
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c incrConnComp.cpp -o incrConnComp.o
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c interfaces.cpp -o interfaces.o
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'typename boost::graph_traits<G>::degree_size_type boost::edge_connectivity(VertexListGraph&, OutputIterator) [with VertexListGraph = Graph_ud, OutputIterator = std::back_insert_iterator<std::vector<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int>, std::allocator<boost::detail::edge_desc_impl<boost::undirected_tag, unsigned int> > > >]':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' was declared here
boostIncl/boost/graph/edge_connectivity.hpp:32: warning: 'p' may be used uninitialized in this function
boostIncl/boost/graph/edge_connectivity.hpp:32: note: 'p' was declared here
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c layout.cpp -o layout.o
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: warning: unused variable 'r'
layout.cpp:117: warning: unused variable 'w'
layout.cpp:118: warning: unused variable 'h'
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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>, 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>, 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>*, 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>, 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>*, 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>, boost::no_property> >, unsigned int>, boost::simple_point<double>, boost::simple_point<double>&>]':
fruchterman_reingold.hpp:423:   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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>, 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>, 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>*, 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>, 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>*, 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:   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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>, 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>, 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>*, 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:   instantiated from 'void boost::fruchterman_reingold_force_directed_layout(const Graph&, PositionMap, Dim, Dim) [with Graph = IndexGraph, 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>, 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>*, boost::simple_point<double>, boost::simple_point<double>&, vertex_position_t>, Dim = double]'
layout.cpp:112:   instantiated from here
fruchterman_reingold.hpp:354: warning: suggest parentheses around assignment used as truth value
boostIncl/boost/graph/dijkstra_shortest_paths.hpp: In function 'bool boost::johnson_all_pairs_shortest_paths(VertexAndEdgeListGraph&, DistanceMatrix&, VertexID, Weight, const BinaryPredicate&, const BinaryFunction&, const Infinity&, DistanceZero) [with VertexAndEdgeListGraph = const 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::no_property> >, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>, DistanceMatrix = __gnu_cxx::__normal_iterator<std::vector<double, std::allocator<double> >*, std::vector<std::vector<double, std::allocator<double> >, std::allocator<std::vector<double, std::allocator<double> > > > >, VertexID = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_index_t, int, boost::property<vertex_position_t, boost::simple_point<double>, boost::no_property> >, unsigned int>, Weight = boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, BinaryPredicate = std::less<double>, BinaryFunction = boost::closed_plus<double>, Infinity = double, DistanceZero = double]':
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:81: warning: 'bfs_vis.boost::detail::dijkstra_bfs_visitor<boost::dijkstra_visitor<boost::null_visitor>, boost::relaxed_heap<unsigned int, boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, std::less<double> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_distance_t, double, boost::no_property>, unsigned int> >, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::edge_weight2_t>, boost::dummy_property_map, boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, boost::closed_plus<double>, std::less<double> >::m_decreased' is used uninitialized in this function
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:205: note: 'bfs_vis.boost::detail::dijkstra_bfs_visitor<boost::dijkstra_visitor<boost::null_visitor>, boost::relaxed_heap<unsigned int, boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, std::less<double> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_distance_t, double, boost::no_property>, unsigned int> >, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::edge_weight2_t>, boost::dummy_property_map, boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, boost::closed_plus<double>, std::less<double> >::m_decreased' was declared here
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c mincut.cpp -o mincut.o
boostIncl/boost/graph/push_relabel_max_flow.hpp: In member function 'void boost::detail::push_relabel<Graph, EdgeCapacityMap, ResidualCapacityEdgeMap, ReverseEdgeMap, VertexIndexMap, FlowValue>::discharge(typename boost::graph_traits<Graph>::vertex_descriptor) [with Graph = boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >, boost::no_property, boost::listS>, EdgeCapacityMap = boost::adj_list_edge_property_map<boost::directed_tag, double, const double&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >, boost::edge_capacity_t>, ResidualCapacityEdgeMap = boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >, boost::edge_residual_capacity_t>, ReverseEdgeMap = boost::adj_list_edge_property_map<boost::directed_tag, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, const boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>&, unsigned int, const boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >, boost::edge_reverse_t>, VertexIndexMap = boost::vec_adj_list_vertex_id_map<boost::no_property, unsigned int>, FlowValue = double]':
boostIncl/boost/graph/push_relabel_max_flow.hpp:340: warning: 'min_edge_iter.boost::detail::out_edge_iter<__gnu_cxx::__normal_iterator<boost::detail::sep_<unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > > >*, std::vector<boost::detail::sep_<unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > > >, std::allocator<boost::detail::sep_<unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > > > > > >, unsigned int, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, int>::m_src' may be used uninitialized in this function
boostIncl/boost/graph/push_relabel_max_flow.hpp:340: note: 'min_edge_iter.boost::detail::out_edge_iter<__gnu_cxx::__normal_iterator<boost::detail::sep_<unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > > >*, std::vector<boost::detail::sep_<unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > > >, std::allocator<boost::detail::sep_<unsigned int, boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > > > > > >, unsigned int, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, int>::m_src' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'SEXPREC* BGL_max_flow_internal(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, E_MF_METHOD)':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'typename boost::graph_traits<G>::edges_size_type boost::min_cut(VertexListGraph&, OutputIterator, OutputIterator) [with VertexListGraph = Graph_ud, OutputIterator = std::back_insert_iterator<std::vector<unsigned int, std::allocator<unsigned int> > >]':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, unsigned int, boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, unsigned int, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' was declared here
boostIncl/boost/graph/edge_connectivity.hpp:32: warning: 'p' may be used uninitialized in this function
boostIncl/boost/graph/edge_connectivity.hpp:32: note: 'p' was declared here
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c minST.cpp -o minST.o
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c ordering.cpp -o ordering.o
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c shortestPath.cpp -o shortestPath.o
boostIncl/boost/graph/dijkstra_shortest_paths.hpp: In function 'bool boost::johnson_all_pairs_shortest_paths(VertexAndEdgeListGraph&, DistanceMatrix&, VertexID, Weight, const BinaryPredicate&, const BinaryFunction&, const Infinity&, DistanceZero) [with VertexAndEdgeListGraph = R_adjacency_list<boost::directedS, double>, DistanceMatrix = Basic2DMatrix<double>, VertexID = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type, boost::no_property>, unsigned int>, Weight = boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, BinaryPredicate = std::less<double>, BinaryFunction = boost::closed_plus<double>, Infinity = double, DistanceZero = double]':
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:81: warning: 'bfs_vis.boost::detail::dijkstra_bfs_visitor<boost::dijkstra_visitor<boost::null_visitor>, boost::relaxed_heap<unsigned int, boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, std::less<double> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_distance_t, double, boost::no_property>, unsigned int> >, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::edge_weight2_t>, boost::dummy_property_map, boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, boost::closed_plus<double>, std::less<double> >::m_decreased' is used uninitialized in this function
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:205: note: 'bfs_vis.boost::detail::dijkstra_bfs_visitor<boost::dijkstra_visitor<boost::null_visitor>, boost::relaxed_heap<unsigned int, boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, std::less<double> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_distance_t, double, boost::no_property>, unsigned int> >, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::edge_weight2_t>, boost::dummy_property_map, boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, boost::closed_plus<double>, std::less<double> >::m_decreased' was declared here
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/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 'SEXPREC* lambdaSets(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_target' was declared here
boostIncl/boost/graph/detail/adjacency_list.hpp:263: warning: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:2203: note: 'p.boost::property<boost::edge_capacity_t, double, boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> > >::<anonymous>.boost::property<boost::edge_residual_capacity_t, double, boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property> >::<anonymous>.boost::property<boost::edge_reverse_t, boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>, boost::no_property>::m_value.boost::detail::edge_desc_impl<boost::directed_tag, unsigned int>::<anonymous>.boost::detail::edge_base<boost::directed_tag, unsigned int>::m_source' was declared here
boostIncl/boost/graph/dijkstra_shortest_paths.hpp: In function 'bool boost::johnson_all_pairs_shortest_paths(VertexAndEdgeListGraph&, DistanceMatrix&, VertexID, Weight, const BinaryPredicate&, const BinaryFunction&, const Infinity&, DistanceZero) [with VertexAndEdgeListGraph = R_adjacency_list<boost::undirectedS, double>, DistanceMatrix = Basic2DMatrix<double>, VertexID = boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_color_t, boost::default_color_type, boost::no_property>, unsigned int>, Weight = boost::adj_list_edge_property_map<boost::undirected_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::edge_weight_t>, BinaryPredicate = std::less<double>, BinaryFunction = boost::closed_plus<double>, Infinity = double, DistanceZero = double]':
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:81: warning: 'bfs_vis.boost::detail::dijkstra_bfs_visitor<boost::dijkstra_visitor<boost::null_visitor>, boost::relaxed_heap<unsigned int, boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, std::less<double> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_distance_t, double, boost::no_property>, unsigned int> >, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::edge_weight2_t>, boost::dummy_property_map, boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, boost::closed_plus<double>, std::less<double> >::m_decreased' is used uninitialized in this function
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:205: note: 'bfs_vis.boost::detail::dijkstra_bfs_visitor<boost::dijkstra_visitor<boost::null_visitor>, boost::relaxed_heap<unsigned int, boost::indirect_cmp<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, std::less<double> >, boost::vec_adj_list_vertex_id_map<boost::property<boost::vertex_distance_t, double, boost::no_property>, unsigned int> >, boost::adj_list_edge_property_map<boost::directed_tag, double, double&, unsigned int, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::edge_weight2_t>, boost::dummy_property_map, boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_distance_t, double, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::property<boost::edge_weight2_t, double, boost::no_property> >, boost::no_property, boost::listS>*, double, double&, boost::vertex_distance_t>, boost::closed_plus<double>, std::less<double> >::m_decreased' was declared here
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c transitive_closure.cpp -o transitive_closure.o
g++ -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include   -IboostIncl  -fpic  -g -O2 -Wall -c wavefront.cpp -o wavefront.o
g++ -shared -L/usr/local/lib -o RBGL.so bbc.o cliques.o clusteringCoef.o dominatorTree.o hcs.o incrConnComp.o interfaces.o layout.o mincut.o minST.o ordering.o shortestPath.o sna.o transitive_closure.o wavefront.o   -L/home/biocbuild/bbs-2.2-bioc/R/lib -lR
** R
** data
** inst
** preparing package for lazy loading
Loading required package: graph
** help
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 >>> 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
  clusteringCoefAppr                text    html    latex   example
  coloring                          text    html    latex   example
  connectedComp                     text    html    latex   example
  dag.sp                            text    html    latex   example
  dijkstra.sp                       text    html    latex   example
  dominatorTree                     text    html    latex   example
  edgeConn                          text    html    latex   example
  extractPath                       text    html    latex   example
  floyd.warshall.all.pairs.sp       text    html    latex   example
  gprofile                          text    html    latex   example
  graphGenerator                    text    html    latex   example
  highlyConnSG                      text    html    latex   example
  incrConnComp                      text    html    latex   example
  is.triangulated                   text    html    latex   example
  isomorphism                       text    html    latex   example
  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
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  mstree.kruskal                    text    html    latex   example
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  sp.between                        text    html    latex   example
  strongComp                        text    html    latex   example
  transClosure                      text    html    latex   example
  transitivity                      text    html    latex   example
  tsort                             text    html    latex   example
  wavefront                         text    html    latex   example
** 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 and make files
* checking for empty or unneeded directories
* building 'RBGL_1.15.7.tar.gz'