##############################################################################
##############################################################################
###
### Running command:
###
### rm -rf RBGL.buildbin-libdir && mkdir RBGL.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh RBGL_1.72.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R RBGL.buildbin-libdir
###
##############################################################################
##############################################################################
>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=RBGL.buildbin-libdir RBGL_1.72.0.tar.gz'
>>>>>>>
* installing *source* package ‘RBGL’ ...
** using staged installation
** libs
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c bbc.cpp -o bbc.o
In file included from bbc.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/graph_traits.hpp:61:22: note: in instantiation of template class '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>' requested here
typedef typename G::vertex_descriptor vertex_descriptor;
^
bbc.cpp:18:9: note: in instantiation of template class 'boost::graph_traits<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> >' requested here
typedef graph_traits<BCGraph>::edge_descriptor Edge;
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
1 warning generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c cliques.cpp -o cliques.o
In file included from cliques.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
./RBGL.hpp:46:22: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>' requested here
: public boost::adjacency_list<boost::vecS, boost::vecS, DirectedS,
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/graph_traits.hpp:61:22: note: in instantiation of template class 'R_adjacency_list<boost::undirectedS, double>' requested here
typedef typename G::vertex_descriptor vertex_descriptor;
^
cliques.cpp:23:39: note: in instantiation of template class 'boost::graph_traits<R_adjacency_list<boost::undirectedS, double> >' requested here
static bool isClique(Graph_ud& g, graph_traits < Graph_ud >::vertex_descriptor v)
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
1 warning generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c clusteringCoef.cpp -o clusteringCoef.o
In file included from clusteringCoef.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
./RBGL.hpp:46:22: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>' requested here
: public boost::adjacency_list<boost::vecS, boost::vecS, DirectedS,
^
clusteringCoef.cpp:20:9: note: in instantiation of template class 'R_adjacency_list<boost::undirectedS, double>' requested here
Graph_ud::vertex_iterator vi, v_end;
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
1 warning generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c dominatorTree.cpp -o dominatorTree.o
In file included from dominatorTree.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
dominatorTree.cpp:19:18: note: in instantiation of template class '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>' requested here
VEGraph g(NV);
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
1 warning generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c edmonds_optimum_branching.cpp -o edmonds_optimum_branching.o
In file included from edmonds_optimum_branching.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
./RBGL.hpp:46:22: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>' requested here
: public boost::adjacency_list<boost::vecS, boost::vecS, DirectedS,
^
edmonds_optimum_branching.cpp:14:18: note: in instantiation of template class 'R_adjacency_list<boost::directedS, double>' requested here
Graph_dd g(num_verts_in, num_edges_in, R_edges_in, R_weights_in);
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
In file included from edmonds_optimum_branching.cpp:3:
In file included from ./edmonds_optimum_branching.hpp:94:
./edmonds_optimum_branching_impl.hpp:520:71: warning: unused typedef 'EdgeIter' [-Wunused-local-typedef]
typedef typename graph_traits<TEdgeListGraph>::edge_iterator EdgeIter;
^
./edmonds_optimum_branching_impl.hpp:521:71: warning: unused typedef 'weight_t' [-Wunused-local-typedef]
typedef typename property_traits<TWeightMap>::value_type weight_t;
^
3 warnings generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c hcs.cpp -o hcs.o
In file included from hcs.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
./RBGL.hpp:46:22: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>' requested here
: public boost::adjacency_list<boost::vecS, boost::vecS, DirectedS,
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/graph_traits.hpp:61:22: note: in instantiation of template class 'R_adjacency_list<boost::undirectedS, double>' requested here
typedef typename G::vertex_descriptor vertex_descriptor;
^
hcs.cpp:12:9: note: in instantiation of template class 'boost::graph_traits<R_adjacency_list<boost::undirectedS, double> >' requested here
typedef graph_traits < Graph_ud >::vertex_descriptor vertex_descriptor;
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
1 warning generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c incrConnComp.cpp -o incrConnComp.o
In file included from incrConnComp.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
./RBGL.hpp:46:22: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>' requested here
: public boost::adjacency_list<boost::vecS, boost::vecS, DirectedS,
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/graph_traits.hpp:61:22: note: in instantiation of template class 'R_adjacency_list<boost::undirectedS, double>' requested here
typedef typename G::vertex_descriptor vertex_descriptor;
^
incrConnComp.cpp:11:17: note: in instantiation of template class 'boost::graph_traits<R_adjacency_list<boost::undirectedS, double> >' requested here
typedef graph_traits<Graph_ud>::vertex_descriptor Vertex;
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
incrConnComp.cpp:74:32: warning: unused variable 'child_index' [-Wunused-variable]
BOOST_FOREACH(VertexIndex child_index, components[current_index]) {
^
2 warnings generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c interfaces.cpp -o interfaces.o
In file included from interfaces.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
./RBGL.hpp:46:22: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>' requested here
: public boost::adjacency_list<boost::vecS, boost::vecS, DirectedS,
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/graph_traits.hpp:61:22: note: in instantiation of template class 'R_adjacency_list<boost::directedS, double>' requested here
typedef typename G::vertex_descriptor vertex_descriptor;
^
interfaces.cpp:57:17: note: in instantiation of template class 'boost::graph_traits<R_adjacency_list<boost::directedS, double> >' requested here
typedef graph_traits < Graph_dd >::edge_descriptor Edge;
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
interfaces.cpp:61:62: warning: unused typedef 'Color' [-Wunused-local-typedef]
typedef property_map<Graph_dd, vertex_color_t>::type Color;
^
interfaces.cpp:57:60: warning: unused typedef 'Edge' [-Wunused-local-typedef]
typedef graph_traits < Graph_dd >::edge_descriptor Edge;
^
interfaces.cpp:98:60: warning: unused typedef 'Edge' [-Wunused-local-typedef]
typedef graph_traits < Graph_dd >::edge_descriptor Edge;
^
interfaces.cpp:99:62: warning: unused typedef 'Vertex' [-Wunused-local-typedef]
typedef graph_traits < Graph_dd >::vertex_descriptor Vertex;
^
interfaces.cpp:143:62: warning: unused typedef 'Vertex' [-Wunused-local-typedef]
typedef graph_traits < Graph_dd >::vertex_descriptor Vertex;
^
interfaces.cpp:142:60: warning: unused typedef 'Edge' [-Wunused-local-typedef]
typedef graph_traits < Graph_dd >::edge_descriptor Edge;
^
interfaces.cpp:198:60: warning: unused typedef 'Edge' [-Wunused-local-typedef]
typedef graph_traits < Graph_ud >::edge_descriptor Edge;
^
interfaces.cpp:199:62: warning: unused typedef 'Vertex' [-Wunused-local-typedef]
typedef graph_traits < Graph_ud >::vertex_descriptor Vertex;
^
interfaces.cpp:226:62: warning: unused typedef 'Vertex' [-Wunused-local-typedef]
typedef graph_traits < Graph_dd >::vertex_descriptor Vertex;
^
interfaces.cpp:225:60: warning: unused typedef 'Edge' [-Wunused-local-typedef]
typedef graph_traits < Graph_dd >::edge_descriptor Edge;
^
interfaces.cpp:253:62: warning: unused typedef 'Vertex' [-Wunused-local-typedef]
typedef graph_traits < Graph_ud >::vertex_descriptor Vertex;
^
interfaces.cpp:252:60: warning: unused typedef 'Edge' [-Wunused-local-typedef]
typedef graph_traits < Graph_ud >::edge_descriptor Edge;
^
interfaces.cpp:295:60: warning: unused typedef 'Edge' [-Wunused-local-typedef]
typedef graph_traits < Graph_ud >::edge_descriptor Edge;
^
interfaces.cpp:320:62: warning: unused typedef 'Vertex' [-Wunused-local-typedef]
typedef graph_traits < Graph_ud >::vertex_descriptor Vertex;
^
interfaces.cpp:361:62: warning: unused typedef 'Vertex' [-Wunused-local-typedef]
typedef graph_traits < Graph_ud >::vertex_descriptor Vertex;
^
interfaces.cpp:360:60: warning: unused typedef 'Edge' [-Wunused-local-typedef]
typedef graph_traits < Graph_ud >::edge_descriptor Edge;
^
17 warnings generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c minST.cpp -o minST.o
In file included from minST.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
./RBGL.hpp:46:22: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>' requested here
: public boost::adjacency_list<boost::vecS, boost::vecS, DirectedS,
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/graph_traits.hpp:61:22: note: in instantiation of template class 'R_adjacency_list<boost::directedS, double>' requested here
typedef typename G::vertex_descriptor vertex_descriptor;
^
minST.cpp:13:17: note: in instantiation of template class 'boost::graph_traits<R_adjacency_list<boost::directedS, double> >' requested here
typedef graph_traits < Graph_dd >::edge_descriptor Edge;
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
minST.cpp:14:62: warning: unused typedef 'Vertex' [-Wunused-local-typedef]
typedef graph_traits < Graph_dd >::vertex_descriptor Vertex;
^
minST.cpp:48:62: warning: unused typedef 'Vertex' [-Wunused-local-typedef]
typedef graph_traits < Graph_ud >::vertex_descriptor Vertex;
^
minST.cpp:81:60: warning: unused typedef 'Edge' [-Wunused-local-typedef]
typedef graph_traits < Graph_ud >::edge_descriptor Edge;
^
4 warnings generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c mincut.cpp -o mincut.o
In file included from mincut.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/graph_traits.hpp:61:22: note: in instantiation of template class '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 long>, boost::no_property> > >, boost::no_property, boost::listS>' requested here
typedef typename G::vertex_descriptor vertex_descriptor;
^
mincut.cpp:24:13: note: in instantiation of template class 'boost::graph_traits<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 long>, boost::no_property> > >, boost::no_property, boost::listS> >' requested here
typedef graph_traits<FlowGraph>::edge_iterator edge_iterator;
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
1 warning generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c ordering.cpp -o ordering.o
In file included from ordering.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
ordering.cpp:36:11: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::listS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::no_property>, boost::no_property, boost::no_property, boost::listS>' requested here
VEGraph g1(NV1), g2(NV2);
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
ordering.cpp:182:48: warning: unused variable 'id' [-Wunused-variable]
property_map<Graph_dd, vertex_index_t>::type id = get(vertex_index, g);
^
ordering.cpp:133:53: warning: unused typedef 'Vertex' [-Wunused-local-typedef]
typedef graph_traits<Graph_dd>::vertex_descriptor Vertex;
^
ordering.cpp:176:53: warning: unused typedef 'Vertex' [-Wunused-local-typedef]
typedef graph_traits<Graph_dd>::vertex_descriptor Vertex;
^
ordering.cpp:232:47: warning: unused typedef 'Pair' [-Wunused-local-typedef]
typedef std::pair<std::size_t, std::size_t> Pair;
^
5 warnings generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c planar.cpp -o planar.o
In file included from planar.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/is_kuratowski_subgraph.hpp:114:30: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::no_property, boost::no_property, boost::no_property, boost::listS>' requested here
static small_graph_t K_5(detail::make_K_5< small_graph_t >());
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
planar.cpp:225:30: warning: unused variable 'oi' [-Wunused-variable]
Vertex_Vec_t::iterator oi, oi_end = ordering.end();
^
planar.cpp:225:34: warning: unused variable 'oi_end' [-Wunused-variable]
Vertex_Vec_t::iterator oi, oi_end = ordering.end();
^
planar.cpp:429:32: warning: unused variable 'ki' [-Wunused-variable]
Edge_Vec_t::iterator ki, ki_end = kuratowski_edges.end();
^
planar.cpp:429:36: warning: unused variable 'ki_end' [-Wunused-variable]
Edge_Vec_t::iterator ki, ki_end = kuratowski_edges.end();
^
planar.cpp:461:6: warning: unused variable 'i' [-Wunused-variable]
int i, j = 0;
^
6 warnings generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c registerSigHandlers.cpp -o registerSigHandlers.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c shortestPath.cpp -o shortestPath.o
In file included from shortestPath.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
./RBGL.hpp:46:22: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>' requested here
: public boost::adjacency_list<boost::vecS, boost::vecS, DirectedS,
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/graph_traits.hpp:61:22: note: in instantiation of template class 'R_adjacency_list<boost::directedS, double>' requested here
typedef typename G::vertex_descriptor vertex_descriptor;
^
shortestPath.cpp:17:17: note: in instantiation of template class 'boost::graph_traits<R_adjacency_list<boost::directedS, double> >' requested here
typedef graph_traits < Graph_dd >::edge_descriptor Edge;
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
shortestPath.cpp:17:60: warning: unused typedef 'Edge' [-Wunused-local-typedef]
typedef graph_traits < Graph_dd >::edge_descriptor Edge;
^
shortestPath.cpp:136:60: warning: unused typedef 'Edge' [-Wunused-local-typedef]
typedef graph_traits < Graph_dd >::edge_descriptor Edge;
^
shortestPath.cpp:180:39: warning: unused typedef 'Edge' [-Wunused-local-typedef]
typedef std::pair < int, int >Edge;
^
shortestPath.cpp:177:81: warning: unused typedef 'Graph' [-Wunused-local-typedef]
property< edge_weight_t, double, property< edge_weight2_t, double > > > Graph;
^
5 warnings generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c sna.cpp -o sna.o
In file included from sna.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
./RBGL.hpp:46:22: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>' requested here
: public boost::adjacency_list<boost::vecS, boost::vecS, DirectedS,
^
sna.cpp:100:18: note: in instantiation of template class 'R_adjacency_list<boost::undirectedS, double>' requested here
Graph_ud g(num_verts_in, num_edges_in, R_edges_in, R_weights_in);
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
sna.cpp:161:9: warning: unused variable 'res_cap' [-Wunused-variable]
res_cap = get(edge_residual_capacity, flow_g);
^
2 warnings generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c transitive_closure.cpp -o transitive_closure.o
In file included from transitive_closure.cpp:16:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/transitive_closure.hpp:21:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/transitive_closure.hpp:93:10: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::no_property, boost::no_property, boost::no_property, boost::listS>' requested here
CG_t CG(num_scc);
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
1 warning generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c wavefront.cpp -o wavefront.o
In file included from wavefront.cpp:1:
In file included from ./RBGL.hpp:38:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/scoped_ptr.hpp:13:
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: 'auto_ptr<boost::no_property>' is deprecated [-Wdeprecated-declarations]
explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
^
/Library/Frameworks/R.framework/Versions/4.2/Resources/library/BH/include/boost/graph/adjacency_list.hpp:408:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
property_ptr m_property;
^
./RBGL.hpp:46:22: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_color_t, boost::default_color_type, boost::no_property>, boost::property<boost::edge_weight_t, double, boost::no_property>, boost::no_property, boost::listS>' requested here
: public boost::adjacency_list<boost::vecS, boost::vecS, DirectedS,
^
wavefront.cpp:13:12: note: in instantiation of template class 'R_adjacency_list<boost::undirectedS, double>' requested here
Graph_ud g(num_verts_in, num_edges_in, R_edges_in);
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/memory:2080:28: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
class _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 auto_ptr
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1101:39: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/Library/Developer/CommandLineTools/usr/bin/../include/c++/v1/__config:1090:48: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__ ((deprecated))
^
1 warning generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o RBGL.so bbc.o cliques.o clusteringCoef.o dominatorTree.o edmonds_optimum_branching.o hcs.o incrConnComp.o interfaces.o minST.o mincut.o ordering.o planar.o registerSigHandlers.o shortestPath.o sna.o transitive_closure.o wavefront.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.15-bioc/meat/RBGL.buildbin-libdir/00LOCK-RBGL/00new/RBGL/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (RBGL)
>>>>>>>
>>>>>>> FIXING LINKS FOR RBGL.buildbin-libdir/RBGL/libs/RBGL.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libgcc_s.1.dylib" "RBGL.buildbin-libdir/RBGL/libs/RBGL.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libgfortran.5.dylib" "RBGL.buildbin-libdir/RBGL/libs/RBGL.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libquadmath.0.dylib" "RBGL.buildbin-libdir/RBGL/libs/RBGL.so"
