* installing to library ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages’
* installing *source* package ‘spNetwork’ ...
** this is package ‘spNetwork’ version ‘0.4.4.7’
** package ‘spNetwork’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
specified C++17
using C++ compiler: ‘Debian clang version 21.1.8 (1+b1)’
using C++17
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpvOswB2/R.INSTALL3c08ec74bb4c56/spNetwork/src'
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppProgress/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c RcppExports.cpp -o RcppExports.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppProgress/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c base_kernel_funtions.cpp -o base_kernel_funtions.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppProgress/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c border_correction.cpp -o border_correction.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppProgress/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c bw_selection_nkde.cpp -o bw_selection_nkde.o
bw_selection_nkde.cpp:37:7: warning: unused variable 'depth' [-Wunused-variable]
37 | int depth = 0;
| ^~~~~
bw_selection_nkde.cpp:145:7: warning: unused variable 'depth' [-Wunused-variable]
145 | int depth = 0;
| ^~~~~
bw_selection_nkde.cpp:267:7: warning: unused variable 'depth' [-Wunused-variable]
267 | int depth = 0;
| ^~~~~
3 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppProgress/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c bw_selection_tnkde.cpp -o bw_selection_tnkde.o
bw_selection_tnkde.cpp:41:7: warning: unused variable 'depth' [-Wunused-variable]
41 | int depth = 0;
| ^~~~~
bw_selection_tnkde.cpp:172:8: warning: unused variable 'depth' [-Wunused-variable]
172 | int depth = 0;
| ^~~~~
bw_selection_tnkde.cpp:188:11: warning: unused variable 'bw_net' [-Wunused-variable]
188 | double bw_net, bw_time;
| ^~~~~~
bw_selection_tnkde.cpp:188:19: warning: unused variable 'bw_time' [-Wunused-variable]
188 | double bw_net, bw_time;
| ^~~~~~~
bw_selection_tnkde.cpp:325:7: warning: unused variable 'depth' [-Wunused-variable]
325 | int depth = 0;
| ^~~~~
bw_selection_tnkde.cpp:475:8: warning: unused variable 'depth' [-Wunused-variable]
475 | int depth = 0;
| ^~~~~
bw_selection_tnkde.cpp:489:11: warning: unused variable 'bw_net' [-Wunused-variable]
489 | double bw_net, bw_time;
| ^~~~~~
bw_selection_tnkde.cpp:489:19: warning: unused variable 'bw_time' [-Wunused-variable]
489 | double bw_net, bw_time;
| ^~~~~~~
bw_selection_tnkde.cpp:643:7: warning: unused variable 'depth' [-Wunused-variable]
643 | int depth = 0;
| ^~~~~
bw_selection_tnkde.cpp:846:8: warning: unused variable 'depth' [-Wunused-variable]
846 | int depth = 0;
| ^~~~~
bw_selection_tnkde.cpp:856:8: warning: unused variable 'n_bw_net' [-Wunused-variable]
856 | int n_bw_net = bws_net.n_rows;
| ^~~~~~~~
bw_selection_tnkde.cpp:857:8: warning: unused variable 'n_bw_time' [-Wunused-variable]
857 | int n_bw_time = bws_time.n_cols;
| ^~~~~~~~~
bw_selection_tnkde.cpp:866:19: warning: unused variable 'bw_time' [-Wunused-variable]
866 | double bw_net, bw_time;
| ^~~~~~~
bw_selection_tnkde.cpp:997:8: warning: unused variable 'n_net' [-Wunused-variable]
997 | int n_net = bws_net.n_rows;
| ^~~~~
14 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppProgress/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c geometrical_functions.cpp -o geometrical_functions.o
In file included from geometrical_functions.cpp:10:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry.hpp:17:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/geometry.hpp:63:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/buffer.hpp:22:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/buffer/implementation.hpp:25:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/buffer/buffer_inserter.hpp:30:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/buffer/buffered_piece_collection.hpp:33:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/covered_by.hpp:25:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/covered_by/implementation_gc.hpp:16:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/relate/implementation_gc.hpp:18:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/difference.hpp:19:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/intersection/gc.hpp:19:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/intersection/interface.hpp:18:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/overlay/intersection_insert.hpp:34:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/overlay/overlay.hpp:37:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/overlay/traverse.hpp:20:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/overlay/graph/detect_biconnected_components.hpp:19:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/overlay/graph/graph_util.hpp:13:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/scoped_ptr.hpp:13:
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/smart_ptr/scoped_ptr.hpp:63:31: warning: 'auto_ptr<boost::no_property>' is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations]
63 | explicit scoped_ptr( std::auto_ptr<T> p ) noexcept : px( p.release() )
| ^
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/graph/adjacency_list.hpp:411:18: note: in instantiation of template class 'boost::scoped_ptr<boost::no_property>' requested here
411 | property_ptr m_property;
| ^
/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/geometry/algorithms/detail/overlay/graph/detect_biconnected_components.hpp:244:13: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::no_property, boost::property<boost::geometry::detail::overlay::edge_component, unsigned long>>' requested here
244 | graph_t graph(state.vertex_map.size());
| ^
/usr/lib/gcc/x86_64-linux-gnu/15/../../../../include/c++/15/backward/auto_ptr.h:291:7: note: 'auto_ptr<boost::no_property>' has been explicitly marked deprecated here
291 | } _GLIBCXX11_DEPRECATED_SUGGEST("std::unique_ptr");
| ^
/usr/lib/gcc/x86_64-linux-gnu/15/../../../../include/x86_64-linux-gnu/c++/15/bits/c++config.h:120:45: note: expanded from macro '_GLIBCXX11_DEPRECATED_SUGGEST'
120 | # define _GLIBCXX11_DEPRECATED_SUGGEST(ALT) _GLIBCXX_DEPRECATED_SUGGEST(ALT)
| ^
/usr/lib/gcc/x86_64-linux-gnu/15/../../../../include/x86_64-linux-gnu/c++/15/bits/c++config.h:112:19: note: expanded from macro '_GLIBCXX_DEPRECATED_SUGGEST'
112 | __attribute__ ((__deprecated__ ("use '" ALT "' instead")))
| ^
geometrical_functions.cpp:260:22: warning: unused variable 'x3' [-Wunused-variable]
260 | double x2,y2,x1,y1,x3,y3,dd;
| ^~
geometrical_functions.cpp:260:25: warning: unused variable 'y3' [-Wunused-variable]
260 | double x2,y2,x1,y1,x3,y3,dd;
| ^~
geometrical_functions.cpp:324:13: warning: unused variable 'dd' [-Wunused-variable]
324 | double d, dd, totald, dt, t;
| ^~
geometrical_functions.cpp:324:17: warning: unused variable 'totald' [-Wunused-variable]
324 | double d, dd, totald, dt, t;
| ^~~~~~
geometrical_functions.cpp:324:25: warning: unused variable 'dt' [-Wunused-variable]
324 | double d, dd, totald, dt, t;
| ^~
geometrical_functions.cpp:324:29: warning: unused variable 't' [-Wunused-variable]
324 | double d, dd, totald, dt, t;
| ^
geometrical_functions.cpp:326:7: warning: unused variable 'j' [-Wunused-variable]
326 | int j;
| ^
geometrical_functions.cpp:327:10: warning: unused variable 'x2' [-Wunused-variable]
327 | double x2,y2,x1,y1,x3,y3;
| ^~
geometrical_functions.cpp:327:13: warning: unused variable 'y2' [-Wunused-variable]
327 | double x2,y2,x1,y1,x3,y3;
| ^~
geometrical_functions.cpp:327:16: warning: unused variable 'x1' [-Wunused-variable]
327 | double x2,y2,x1,y1,x3,y3;
| ^~
geometrical_functions.cpp:327:19: warning: unused variable 'y1' [-Wunused-variable]
327 | double x2,y2,x1,y1,x3,y3;
| ^~
geometrical_functions.cpp:327:22: warning: unused variable 'x3' [-Wunused-variable]
327 | double x2,y2,x1,y1,x3,y3;
| ^~
geometrical_functions.cpp:327:25: warning: unused variable 'y3' [-Wunused-variable]
327 | double x2,y2,x1,y1,x3,y3;
| ^~
geometrical_functions.cpp:440:31: warning: unused variable 'diff' [-Wunused-variable]
440 | float start_dist, end_dist, diff, line_length;
| ^~~~
geometrical_functions.cpp:440:37: warning: unused variable 'line_length' [-Wunused-variable]
440 | float start_dist, end_dist, diff, line_length;
| ^~~~~~~~~~~
geometrical_functions.cpp:973:9: warning: unused variable 'j' [-Wunused-variable]
973 | int i,j;
| ^
geometrical_functions.cpp:1040:9: warning: unused variable 'j' [-Wunused-variable]
1040 | int i,j;
| ^
18 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppProgress/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c k_and_g_func.cpp -o k_and_g_func.o
k_and_g_func.cpp:606:13: warning: unused variable 'dtime' [-Wunused-variable]
606 | float dtime = breaks_time[j];
| ^~~~~
1 warning generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppProgress/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c k_and_g_func_time.cpp -o k_and_g_func_time.o
k_and_g_func_time.cpp:334:7: warning: unused variable 'pts_number' [-Wunused-variable]
334 | int pts_number = wr.size();
| ^~~~~~~~~~
k_and_g_func_time.cpp:423:7: warning: unused variable 'pts_number' [-Wunused-variable]
423 | int pts_number = wr.size();
| ^~~~~~~~~~
2 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppProgress/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c matrices_functions.cpp -o matrices_functions.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppProgress/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c nkde_continuous.cpp -o nkde_continuous.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppProgress/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c nkde_discontinuous.cpp -o nkde_discontinuous.o
clang++-21 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -Wl,-O1 -o spNetwork.so RcppExports.o base_kernel_funtions.o border_correction.o bw_selection_nkde.o bw_selection_tnkde.o geometrical_functions.o k_and_g_func.o k_and_g_func_time.o matrices_functions.o nkde_continuous.o nkde_discontinuous.o -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpvOswB2/R.INSTALL3c08ec74bb4c56/spNetwork/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpvOswB2/R.INSTALL3c08ec74bb4c56/spNetwork/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpvOswB2/R.INSTALL3c08ec74bb4c56/spNetwork/src'
installing to /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/00LOCK-spNetwork/00new/spNetwork/libs
** R
** data
*** moving datasets to lazyload DB
** 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 (spNetwork)