Back to the "Multiple platform build/check report"

Package 131/172OSArchBUILDCHECKBUILD BIN

RBGL

1.8.1

Li Long		Linux (SUSE 9.2) x86_64 OK  OK 
Linux (SUSE 9.2) i686 OK  OK 
Solaris 2.9 sparc ERROR skipped
Linux (SUSE 10.0) x86_64 OK [ OK ]
Windows Server 2003 x86_64 OK  OK  OK 
Package: RBGL
Version: 1.8.1
Command: /home/biocbuild/1.8d/R/bin/R CMD check RBGL_1.8.1.tar.gz
RetCode: 0
Time: 100.3 seconds
Status: OK
CheckDir: RBGL.Rcheck
Warnings: 0

Command output

* checking for working latex ... OK
* using log directory '/home/biocbuild/1.8d/Rpacks/RBGL.Rcheck'
* using Version 2.3.1 (2006-06-01)
* checking for file 'RBGL/DESCRIPTION' ... OK
* this is package 'RBGL' version '1.8.1'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'RBGL' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for syntax errors ... OK
* checking R files for library.dynam ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking Rd files ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking for CRLF line endings in C/C++/Fortran sources/headers ... OK
* checking for portable compilation flags in Makevars ... OK
* creating RBGL-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating RBGL-manual.tex ... OK
* checking RBGL-manual.tex ... OK

RBGL.Rcheck/00install.out:

* Installing *source* package 'RBGL' ...
untarring boost include tree...
** libs
g++ -I/home/biocbuild/1.8d/R/include -I/home/biocbuild/1.8d/R/include  -I/usr/local/include  -IboostIncl  -fpic  -g -O2 -Wall -c bbc.cpp -o bbc.o
boostIncl/boost/graph/dijkstra_shortest_paths.hpp: In function 'void boost::detail::dijkstra_dispatch2(const VertexListGraph&, typename boost::graph_traits::vertex_descriptor, DistanceMap, WeightMap, IndexMap, const Params&) [with VertexListGraph = boost::adjacency_list >, boost::property >, boost::no_property, boost::listS>, DistanceMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator > >, boost::vec_adj_list_vertex_id_map >, size_t>, double, double&>, WeightMap = boost::adj_list_edge_property_map >, boost::edge_weight_t>, IndexMap = boost::vec_adj_list_vertex_id_map >, size_t>, Params = boost::bgl_named_params >, boost::property >, boost::no_property, boost::listS>, boost::adj_list_edge_property_map >, boost::edge_weight_t>, boost::iterator_property_map<__gnu_cxx::__normal_iterator, std::allocator > >*, std::vector, std::allocator > >, std::allocator, std::allocator > > > > >, boost::vec_adj_list_vertex_id_map >, size_t>, std::vector, std::allocator > >, std::vector, std::allocator > >&>, boost::iterator_property_map<__gnu_cxx::__normal_iterator > >, boost::vec_adj_list_vertex_id_map >, size_t>, double, double&>, boost::iterator_property_map<__gnu_cxx::__normal_iterator > >, boost::vec_adj_list_vertex_id_map >, size_t>, std::_Bit_type, std::_Bit_type&> >, boost::graph_visitor_t, boost::bgl_named_params > >, boost::vec_adj_list_vertex_id_map >, size_t>, double, double&>, boost::vertex_distance_t, boost::bgl_named_params >, size_t>, boost::vertex_index_t, boost::bgl_named_params >, boost::edge_weight_t>, boost::edge_weight_t, boost::no_property> > > >]':
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:95: warning: 'bfs_vis$m_decreased' is used uninitialized in this function
g++ -I/home/biocbuild/1.8d/R/include -I/home/biocbuild/1.8d/R/include  -I/usr/local/include  -IboostIncl  -fpic  -g -O2 -Wall -c cliques.cpp -o cliques.o
cliques.cpp: In function 'void print_one_clique(oneCliqueType&)':
cliques.cpp:110: warning: comparison between signed and unsigned integer expressions
cliques.cpp: In function 'void print_all_cliques(allCliquesType&, char*)':
cliques.cpp:118: warning: comparison between signed and unsigned integer expressions
cliques.cpp: In function 'void extend_v2(Graph_ud&, std::vector >&, std::vector >&, int, int, int&, allCliquesType&)':
cliques.cpp:138: warning: 'fixp' may be used uninitialized in this function
cliques.cpp:139: warning: 's' may be used uninitialized in this function
cliques.cpp:139: warning: 'pos' may be used uninitialized in this function
cliques.cpp: At global scope:
cliques.cpp:115: warning: 'void print_all_cliques(allCliquesType&, char*)' defined but not used
g++ -I/home/biocbuild/1.8d/R/include -I/home/biocbuild/1.8d/R/include  -I/usr/local/include  -IboostIncl  -fpic  -g -O2 -Wall -c hcs.cpp -o hcs.o
hcs.cpp: In function 'void output_graph_labels(const V_Label&, const char*)':
hcs.cpp:27: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'void build_subgraph(Cluster&, const Graph_ud&, const V_Label&, Graph_ud&, V_Label&)':
hcs.cpp:62: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'void remove_vertices(int, const Graph_ud&, const V_Label&, Graph_ud&, V_Label&)':
hcs.cpp:117: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'dst cluster_distance(const Graph_ud&, V_Label&, int, V_Label&)':
hcs.cpp:134: warning: comparison between signed and unsigned integer expressions
hcs.cpp:138: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'void adopt_singleton(const Graph_ud&, V_Label&, ClusterResult&)':
hcs.cpp:206: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'void remove_clusters(ClusterResult&, const Graph_ud&, const V_Label&, Graph_ud&, V_Label&)':
hcs.cpp:248: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'void HCS_internal(const Graph_ud&, V_Label&, ClusterResult&)':
hcs.cpp:288: warning: comparison between signed and unsigned integer expressions
hcs.cpp: In function 'SEXPREC* HCS_loop(Graph_ud&, V_Label&)':
hcs.cpp:363: warning: comparison between signed and unsigned integer expressions
hcs.cpp:393: warning: comparison between signed and unsigned integer expressions
hcs.cpp:397: warning: comparison between signed and unsigned integer expressions
hcs.cpp:353: warning: unused variable 'found_new_cluster'
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list > >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D107752$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D107752$D107717$m_value$D105546$m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D107752$D107717$m_value$D105546$m_source' is used uninitialized in this function
boostIncl/boost/graph/edge_connectivity.hpp: In function 'typename boost::graph_traits::edges_size_type boost::min_cut(VertexListGraph&, OutputIterator, OutputIterator) [with VertexListGraph = const R_adjacency_list, OutputIterator = std::back_insert_iterator]':
boostIncl/boost/graph/edge_connectivity.hpp:32: warning: 'p' may be used uninitialized in this function
hcs.cpp: At global scope:
hcs.cpp:24: warning: 'void output_graph_labels(const V_Label&, const char*)' defined but not used
hcs.cpp:32: warning: 'void output_graph(const Graph_ud&, const char*)' defined but not used
g++ -I/home/biocbuild/1.8d/R/include -I/home/biocbuild/1.8d/R/include  -I/usr/local/include  -IboostIncl  -fpic  -g -O2 -Wall -c incrConnComp.cpp -o incrConnComp.o
incrConnComp.cpp: In function 'SEXPREC* BGL_incr_comp_internal(SEXPREC*, SEXPREC*, SEXPREC*, E_IC_METHOD)':
incrConnComp.cpp:67: warning: comparison between signed and unsigned integer expressions
g++ -I/home/biocbuild/1.8d/R/include -I/home/biocbuild/1.8d/R/include  -I/usr/local/include  -IboostIncl  -fpic  -g -O2 -Wall -c interfaces.cpp -o interfaces.o
interfaces.cpp: In function 'SEXPREC* BGL_articulation_points_U(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
interfaces.cpp:311: warning: comparison between signed and unsigned integer expressions
interfaces.cpp: In function 'SEXPREC* BGL_astar_search_D(SEXPREC*, SEXPREC*, SEXPREC*)':
interfaces.cpp:441: warning: 'ansList' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list > >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D118060$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D118060$D118025$m_value$D96827$m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D118060$D118025$m_value$D96827$m_source' is used uninitialized in this function
boostIncl/boost/graph/edge_connectivity.hpp: In function 'typename boost::graph_traits::degree_size_type boost::edge_connectivity(VertexListGraph&, OutputIterator) [with VertexListGraph = Graph_ud, OutputIterator = std::back_insert_iterator > >]':
boostIncl/boost/graph/edge_connectivity.hpp:32: warning: 'p' may be used uninitialized in this function
g++ -I/home/biocbuild/1.8d/R/include -I/home/biocbuild/1.8d/R/include  -I/usr/local/include  -IboostIncl  -fpic  -g -O2 -Wall -c layout.cpp -o layout.o
layout.cpp: In function 'SEXPREC* BGL_gursov_atun_layout(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
layout.cpp:219: warning: unused variable 'w'
layout.cpp:220: warning: unused variable 'h'
boostIncl/boost/graph/fruchterman_reingold.hpp: In function 'void boost::fruchterman_reingold_force_directed_layout(const Graph&, PositionMap, Dim, Dim, AttractiveForce, RepulsiveForce, ForcePairs, Cooling, DisplacementMap) [with Graph = boost::adjacency_list, boost::no_property> >, boost::property, boost::no_property, boost::listS>, PositionMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&>, Dim = double, AttractiveForce = boost::square_distance_attractive_force, RepulsiveForce = boost::square_distance_repulsive_force, ForcePairs = boost::grid_force_pairs*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&> >, Cooling = boost::linear_cooling, DisplacementMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&>]':
boostIncl/boost/graph/fruchterman_reingold.hpp:386:   instantiated from 'static void boost::detail::fr_force_directed_layout::run(const Graph&, PositionMap, Dim, Dim, AttractiveForce, RepulsiveForce, ForcePairs, Cooling, boost::detail::error_property_not_found, const boost::bgl_named_params&) [with Graph = boost::adjacency_list, boost::no_property> >, boost::property, boost::no_property, boost::listS>, PositionMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&>, Dim = double, AttractiveForce = boost::square_distance_attractive_force, RepulsiveForce = boost::square_distance_repulsive_force, ForcePairs = boost::grid_force_pairs*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&> >, Cooling = boost::linear_cooling, Param = boost::square_distance_attractive_force, Tag = boost::attractive_force_t, Rest = boost::no_property]'
boostIncl/boost/graph/fruchterman_reingold.hpp:412:   instantiated from 'void boost::fruchterman_reingold_force_directed_layout(const Graph&, PositionMap, Dim, Dim, const boost::bgl_named_params&) [with Graph = boost::adjacency_list, boost::no_property> >, boost::property, boost::no_property, boost::listS>, PositionMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&>, Dim = double, Param = boost::square_distance_attractive_force, Tag = boost::attractive_force_t, Rest = boost::no_property]'
boostIncl/boost/graph/fruchterman_reingold.hpp:433:   instantiated from 'void boost::fruchterman_reingold_force_directed_layout(const Graph&, PositionMap, Dim, Dim) [with Graph = IndexGraph, PositionMap = boost::iterator_property_map<__gnu_cxx::__normal_iterator*, std::vector, std::allocator > > >, boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, boost::simple_point, boost::simple_point&>, Dim = double]'
layout.cpp:187:   instantiated from here
boostIncl/boost/graph/fruchterman_reingold.hpp:332: warning: suggest parentheses around assignment used as truth value
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list, boost::property >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen, boost::property >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::property, boost::property >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper, boost::property >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::property, boost::property >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D118440$m_value' is used uninitialized in this function
boostIncl/boost/graph/dijkstra_shortest_paths.hpp: In function 'bool boost::johnson_all_pairs_shortest_paths(VertexAndEdgeListGraph&, DistanceMatrix&, VertexID, Weight, DistanceZero) [with VertexAndEdgeListGraph = const boost::adjacency_list, boost::no_property> >, boost::property, boost::no_property, boost::listS>, DistanceMatrix = __gnu_cxx::__normal_iterator >*, std::vector >, std::allocator > > > >, VertexID = boost::vec_adj_list_vertex_id_map, boost::no_property> >, size_t>, Weight = boost::adj_list_edge_property_map, boost::edge_weight_t>, DistanceZero = double]':
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:95: warning: 'bfs_vis$m_decreased' is used uninitialized in this function
g++ -I/home/biocbuild/1.8d/R/include -I/home/biocbuild/1.8d/R/include  -I/usr/local/include  -IboostIncl  -fpic  -g -O2 -Wall -c mincut.cpp -o mincut.o
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list > >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D91062$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D91062$D91027$m_value$D88661$m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D91062$D91027$m_value$D88661$m_source' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list > >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper > >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::property > >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D105393$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D105393$D105358$m_value$D88661$m_target' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D105393$D105358$m_value$D88661$m_source' is used uninitialized in this function
boostIncl/boost/graph/edge_connectivity.hpp: In function 'typename boost::graph_traits::edges_size_type boost::min_cut(VertexListGraph&, OutputIterator, OutputIterator) [with VertexListGraph = Graph_ud, OutputIterator = std::back_insert_iterator > >]':
boostIncl/boost/graph/edge_connectivity.hpp:32: warning: 'p' may be used uninitialized in this function
boostIncl/boost/graph/push_relabel_max_flow.hpp: In member function 'void boost::detail::push_relabel::discharge(typename boost::graph_traits::vertex_descriptor) [with Graph = boost::adjacency_list > >, boost::no_property, boost::listS>, EdgeCapacityMap = boost::adj_list_edge_property_map > >, boost::edge_capacity_t>, ResidualCapacityEdgeMap = boost::adj_list_edge_property_map > >, boost::edge_residual_capacity_t>, ReverseEdgeMap = boost::adj_list_edge_property_map > >, boost::edge_reverse_t>, VertexIndexMap = boost::vec_adj_list_vertex_id_map, FlowValue = double]':
boostIncl/boost/graph/push_relabel_max_flow.hpp:340: warning: 'min_edge_iter$m_src' may be used uninitialized in this function
g++ -I/home/biocbuild/1.8d/R/include -I/home/biocbuild/1.8d/R/include  -I/usr/local/include  -IboostIncl  -fpic  -g -O2 -Wall -c minST.cpp -o minST.o
minST.cpp: In function 'SEXPREC* BGL_PRIM_U(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
minST.cpp:99: warning: comparison between signed and unsigned integer expressions
minST.cpp:103: warning: comparison between signed and unsigned integer expressions
minST.cpp:93: warning: unused variable 'vlist'
g++ -I/home/biocbuild/1.8d/R/include -I/home/biocbuild/1.8d/R/include  -I/usr/local/include  -IboostIncl  -fpic  -g -O2 -Wall -c ordering.cpp -o ordering.o
ordering.cpp: In function 'SEXPREC* BGL_king_ordering(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
ordering.cpp:172: warning: unused variable 'delta'
g++ -I/home/biocbuild/1.8d/R/include -I/home/biocbuild/1.8d/R/include  -I/usr/local/include  -IboostIncl  -fpic  -g -O2 -Wall -c shortestPath.cpp -o shortestPath.o
shortestPath.cpp: In function 'SEXPREC* BGL_bellman_ford_shortest_paths(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
shortestPath.cpp:79: warning: unused variable 'j'
shortestPath.cpp: In function 'SEXPREC* BGL_floyd_warshall_all_pairs_shortest_paths_D(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
shortestPath.cpp:180: warning: unused variable 'V'
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list, boost::property >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen, boost::property >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::property, boost::property >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper, boost::property >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::property, boost::property >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D110778$m_value' is used uninitialized in this function
boostIncl/boost/graph/dijkstra_shortest_paths.hpp: In function 'bool boost::johnson_all_pairs_shortest_paths(VertexAndEdgeListGraph&, DistanceMatrix&, VertexID, Weight, DistanceZero) [with VertexAndEdgeListGraph = R_adjacency_list, DistanceMatrix = Basic2DMatrix, VertexID = boost::vec_adj_list_vertex_id_map, size_t>, Weight = boost::adj_list_edge_property_map, boost::edge_weight_t>, DistanceZero = double]':
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:95: warning: 'bfs_vis$m_decreased' is used uninitialized in this function
g++ -I/home/biocbuild/1.8d/R/include -I/home/biocbuild/1.8d/R/include  -I/usr/local/include  -IboostIncl  -fpic  -g -O2 -Wall -c sna.cpp -o sna.o
boostIncl/boost/graph/detail/adjacency_list.hpp: In function 'std::pair boost::add_edge(typename Config::vertex_descriptor, typename Config::vertex_descriptor, boost::vec_adj_list_impl&) [with Graph = boost::adjacency_list, boost::property >, boost::no_property, boost::listS>, Config = boost::detail::adj_list_gen, boost::property >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::property, boost::property >, boost::no_property, boost::listS>::config, Base = boost::directed_graph_helper, boost::property >, boost::no_property, boost::listS>, boost::vecS, boost::vecS, boost::directedS, boost::property, boost::property >, boost::no_property, boost::listS>::config>]':
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$m_value' is used uninitialized in this function
boostIncl/boost/graph/detail/adjacency_list.hpp:262: warning: 'p$D104328$m_value' is used uninitialized in this function
boostIncl/boost/graph/dijkstra_shortest_paths.hpp: In function 'bool boost::johnson_all_pairs_shortest_paths(VertexAndEdgeListGraph&, DistanceMatrix&, VertexID, Weight, DistanceZero) [with VertexAndEdgeListGraph = R_adjacency_list, DistanceMatrix = Basic2DMatrix, VertexID = boost::vec_adj_list_vertex_id_map, size_t>, Weight = boost::adj_list_edge_property_map, boost::edge_weight_t>, DistanceZero = double]':
boostIncl/boost/graph/dijkstra_shortest_paths.hpp:95: warning: 'bfs_vis$m_decreased' is used uninitialized in this function
g++ -I/home/biocbuild/1.8d/R/include -I/home/biocbuild/1.8d/R/include  -I/usr/local/include  -IboostIncl  -fpic  -g -O2 -Wall -c wavefront.cpp -o wavefront.o
g++ -shared -L/usr/local/lib64 -o RBGL.so bbc.o cliques.o hcs.o incrConnComp.o interfaces.o layout.o mincut.o minST.o ordering.o shortestPath.o sna.o wavefront.o   
** R
** data
** inst
** save image
Loading required package: graph
Loading required package: Ruuid
** help
 >>> Building/Updating help pages for package 'RBGL'
     Formats: text html latex example 
  FileDep                           text    html    latex   example
  RBGL.overview                     text    html    latex
  astarSearch                       text    html    latex   example
  bandwidth                         text    html    latex   example
  bccluster                         text    html    latex   example
  bellman.ford.sp                   text    html    latex   example
  betweenness                       text    html    latex   example
  bfs                               text    html    latex   example
  biConnComp                        text    html    latex   example
  coloring                          text    html    latex   example
  connectedComp                     text    html    latex   example
  dag.sp                            text    html    latex   example
  dijkstra.sp                       text    html    latex   example
  edgeConn                          text    html    latex   example
  extractPath                       text    html    latex   example
  floyd.warshall.all.pairs.sp       text    html    latex   example
  gprofile                          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
  layout                            text    html    latex   example
  maxClique                         text    html    latex   example
  maxFlow                           text    html    latex   example
  minCut                            text    html    latex   example
  mstree.kruskal                    text    html    latex   example
  ordering                          text    html    latex   example
  prim.minST                        text    html    latex   example
  separates                         text    html    latex   example
  sp.between                        text    html    latex   example
  strongComp                        text    html    latex   example
  transClosure                      text    html    latex   example
  tsort                             text    html    latex   example
  wavefront                         text    html    latex   example
** building package indices ...
* DONE (RBGL)