Install log for 'bnclassify'

* installing *source* package ‘bnclassify’ ...
** package ‘bnclassify’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘clang version 19.1.5’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/bnclassify/src'
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c anb-operate.cpp -o anb-operate.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c basic-misc.cpp -o basic-misc.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c basic-probs.cpp -o basic-probs.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c bh.cpp -o bh.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c data.cpp -o data.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c graph-internal.cpp -o graph-internal.o
bh.cpp:70:12: warning: unused variable 'index' [-Wunused-variable]
   70 |   IndexMap index = get(vertex_index, original_graph);
      |            ^~~~~
bh.cpp:198:10: note: in instantiation of function template specialization 'graph2R<boost::filtered_graph<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_name_t, std::string>>, boost::property<boost::edge_index_t, int, boost::property<boost::edge_weight_t, double>>>, boost::keep_all, remove_names<boost::vec_adj_list_vertex_property_map<boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_name_t, std::string>>, boost::property<boost::edge_index_t, int, boost::property<boost::edge_weight_t, double>>>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_name_t, std::string>>, boost::property<boost::edge_index_t, int, boost::property<boost::edge_weight_t, double>>> *, std::string, std::string &, boost::vertex_name_t>>>, boost::adjacency_list<boost::vecS, boost::vecS, boost::directedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_name_t, std::string>>, boost::property<boost::edge_index_t, int, boost::property<boost::edge_weight_t, double>>>>' requested here
  198 |   return graph2R(fg, g);
      |          ^
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c infer-test-wrappers.cpp -o infer-test-wrappers.o
bh.cpp:70:12: warning: unused variable 'index' [-Wunused-variable]
   70 |   IndexMap index = get(vertex_index, original_graph);
      |            ^~~~~
bh.cpp:216:10: note: in instantiation of function template specialization 'graph2R<boost::filtered_graph<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_name_t, std::string>>, boost::property<boost::edge_weight_t, double>>, remove_edge_names<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<boost::vertex_name_t, std::string>>, boost::property<boost::edge_weight_t, double>>, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_name_t, std::string>>, boost::property<boost::edge_weight_t, double>> *, std::string, std::string &, boost::vertex_name_t>, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_name_t, std::string>>, boost::property<boost::edge_weight_t, double>>>>, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_name_t, std::string>>, boost::property<boost::edge_weight_t, double>>>' requested here
  216 |   return graph2R(fg, g);    
      |          ^
bh.cpp:70:12: warning: unused variable 'index' [-Wunused-variable]
   70 |   IndexMap index = get(vertex_index, original_graph);
      |            ^~~~~
bh.cpp:272:10: note: in instantiation of function template specialization 'graph2R<boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_name_t, std::string>>, boost::property<boost::edge_weight_t, double>>, boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::property<boost::vertex_index_t, int, boost::property<boost::vertex_name_t, std::string>>, boost::property<boost::edge_weight_t, double>>>' requested here
  272 |   return graph2R(krusk, krusk);       
      |          ^
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c infer.cpp -o infer.o
3 warnings generated.
In file included from infer.cpp:1:
../inst/include/infer.h:114:15: warning: private field 'cpt' is not used [-Wunused-private-field]
  114 |   const CPT & cpt;
      |               ^
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c multidim-array.cpp -o multidim-array.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c table.cpp -o table.o
1 warning generated.
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang19/lib -L/usr/local/clang19/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o bnclassify.so RcppExports.o anb-operate.o basic-misc.o basic-probs.o bh.o data.o graph-internal.o infer-test-wrappers.o infer.o multidim-array.o table.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/bnclassify/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/bnclassify/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/bnclassify/src'
installing to /data/gannet/ripley/R/packages/tests-clang/bnclassify.Rcheck/00LOCK-bnclassify/00new/bnclassify/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (bnclassify)