* installing to library ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages’
* installing *source* package ‘rgeoda’ ...
** this is package ‘rgeoda’ version ‘0.1.0’
** package ‘rgeoda’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Debian clang version 21.1.7 (1)’
using C++17
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpBEWnDL/R.INSTALL7557133519f98/rgeoda/src'
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/libgeoda.cpp -o libgeoda/libgeoda.o
In file included from libgeoda/libgeoda.cpp:14:
In file included from libgeoda/./shape/centroid.h:14:
In file included from libgeoda/./shape/ttmath/ttmath.h:58:
In file included from libgeoda/./shape/ttmath/ttmathbig.h:46:
In file included from libgeoda/./shape/ttmath/ttmathint.h:48:
libgeoda/./shape/ttmath/ttmathuint.h:1350:10: warning: variable 'c' set but not used [-Wunused-but-set-variable]
1350 | uint i, c, xc, yc;
| ^
libgeoda/libgeoda.cpp:204:9: warning: variable 'shppointtotal' set but not used [-Wunused-but-set-variable]
204 | int shppointtotal = 0, shppoint = 0;
| ^
libgeoda/libgeoda.cpp:269:9: warning: variable 'shppointtotal' set but not used [-Wunused-but-set-variable]
269 | int shppointtotal = 0, shppoint = 0, shpringtotal = 0, shpring = 0;
| ^
libgeoda/libgeoda.cpp:269:42: warning: variable 'shpringtotal' set but not used [-Wunused-but-set-variable]
269 | int shppointtotal = 0, shppoint = 0, shpringtotal = 0, shpring = 0;
| ^
libgeoda/libgeoda.cpp:269:60: warning: variable 'shpring' set but not used [-Wunused-but-set-variable]
269 | int shppointtotal = 0, shppoint = 0, shpringtotal = 0, shpring = 0;
| ^
5 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/gda_sa.cpp -o libgeoda/gda_sa.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/gda_data.cpp -o libgeoda/gda_data.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/gda_weights.cpp -o libgeoda/gda_weights.o
In file included from libgeoda/gda_weights.cpp:23:
In file included from libgeoda/SpatialIndAlgs.h:9:
In file included from libgeoda/SpatialIndTypes.h:23:
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")))
| ^
libgeoda/gda_weights.cpp:204:9: warning: variable 'line_cnt' set but not used [-Wunused-but-set-variable]
204 | int line_cnt = 0;
| ^
libgeoda/gda_weights.cpp:448:6: warning: variable 'line_num' set but not used [-Wunused-but-set-variable]
448 | int line_num = 1;
| ^
libgeoda/gda_weights.cpp:502:9: warning: variable 'swmType' set but not used [-Wunused-but-set-variable]
502 | int swmType = 0; // old
| ^
4 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/gda_clustering.cpp -o libgeoda/gda_clustering.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/GenGeomAlgs.cpp -o libgeoda/GenGeomAlgs.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/GenUtils.cpp -o libgeoda/GenUtils.o
libgeoda/GenUtils.cpp:122:12: warning: variable 'SP' set but not used [-Wunused-but-set-variable]
122 | double SP=0, SE=0;
| ^
libgeoda/GenUtils.cpp:122:18: warning: variable 'SE' set but not used [-Wunused-but-set-variable]
122 | double SP=0, SE=0;
| ^
libgeoda/GenUtils.cpp:2047:9: warning: variable 'max_gvf_ind' set but not used [-Wunused-but-set-variable]
2047 | int max_gvf_ind = 0;
| ^
3 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/SpatialIndAlgs.cpp -o libgeoda/SpatialIndAlgs.o
In file included from libgeoda/SpatialIndAlgs.cpp:13:
In file included from libgeoda/SpatialIndAlgs.h:9:
In file included from libgeoda/SpatialIndTypes.h:23:
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")))
| ^
libgeoda/SpatialIndAlgs.cpp:120:7: warning: variable 'qcnt' set but not used [-Wunused-but-set-variable]
120 | int qcnt=0;
| ^
libgeoda/SpatialIndAlgs.cpp:104:6: warning: variable 'cnt' set but not used [-Wunused-but-set-variable]
104 | int cnt=0;
| ^
libgeoda/SpatialIndAlgs.cpp:132:6: warning: variable 'cnt' set but not used [-Wunused-but-set-variable]
132 | int cnt=0;
| ^
libgeoda/SpatialIndAlgs.cpp:340:9: warning: variable 'cnt' set but not used [-Wunused-but-set-variable]
340 | int cnt=0;
| ^
libgeoda/SpatialIndAlgs.cpp:728:6: warning: variable 'cnt' set but not used [-Wunused-but-set-variable]
728 | int cnt=0;
| ^
libgeoda/SpatialIndAlgs.cpp:833:6: warning: variable 'cnt' set but not used [-Wunused-but-set-variable]
833 | int cnt=0;
| ^
libgeoda/SpatialIndAlgs.cpp:1001:6: warning: variable 'cnt' set but not used [-Wunused-but-set-variable]
1001 | int cnt=0;
| ^
8 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/pg/geoms.cpp -o libgeoda/pg/geoms.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/pg/utils.cpp -o libgeoda/pg/utils.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/shapelib/dbfopen.cpp -o libgeoda/shapelib/dbfopen.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/shapelib/safileio.cpp -o libgeoda/shapelib/safileio.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/shapelib/shpopen.cpp -o libgeoda/shapelib/shpopen.o
libgeoda/shapelib/shpopen.cpp:988:21: warning: variable 'nCurrentRecordOffset' set but not used [-Wunused-but-set-variable]
988 | unsigned int nCurrentRecordOffset = 0;
| ^
1 warning generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/weights/PointsToContigWeights.cpp -o libgeoda/weights/PointsToContigWeights.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/weights/PolysToContigWeights.cpp -o libgeoda/weights/PolysToContigWeights.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/weights/GalWeight.cpp -o libgeoda/weights/GalWeight.o
libgeoda/weights/GalWeight.cpp:120:2: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation]
120 | std::sort(undef_obj_positions.begin(),
| ^
libgeoda/weights/GalWeight.cpp:116:5: note: previous statement is here
116 | if (undef_obj_positions.empty())
| ^
1 warning generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/weights/GwtWeight.cpp -o libgeoda/weights/GwtWeight.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/weights/GeodaWeight.cpp -o libgeoda/weights/GeodaWeight.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/weights/VoronoiUtils.cpp -o libgeoda/weights/VoronoiUtils.o
In file included from libgeoda/weights/VoronoiUtils.cpp:27:
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")))
| ^
1 warning generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/sa/BatchLISA.cpp -o libgeoda/sa/BatchLISA.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/sa/BatchLocalMoran.cpp -o libgeoda/sa/BatchLocalMoran.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/sa/LISA.cpp -o libgeoda/sa/LISA.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/sa/MultiGeary.cpp -o libgeoda/sa/MultiGeary.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/sa/MultiJoinCount.cpp -o libgeoda/sa/MultiJoinCount.o
libgeoda/sa/MultiJoinCount.cpp:237:9: warning: variable 'validNeighbors' set but not used [-Wunused-but-set-variable]
237 | int validNeighbors = 0;
| ^
libgeoda/sa/MultiJoinCount.cpp:255:9: warning: variable 'validNeighbors' set but not used [-Wunused-but-set-variable]
255 | int validNeighbors = 0;
| ^
2 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/sa/UniG.cpp -o libgeoda/sa/UniG.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/sa/UniGeary.cpp -o libgeoda/sa/UniGeary.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/sa/UniGstar.cpp -o libgeoda/sa/UniGstar.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/sa/UniJoinCount.cpp -o libgeoda/sa/UniJoinCount.o
libgeoda/sa/UniJoinCount.cpp:237:9: warning: variable 'validNeighbors' set but not used [-Wunused-but-set-variable]
237 | int validNeighbors = 0;
| ^
1 warning generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/sa/UniLocalMoran.cpp -o libgeoda/sa/UniLocalMoran.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/sa/BiLocalMoran.cpp -o libgeoda/sa/BiLocalMoran.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/clustering/fastcluster.cpp -o libgeoda/clustering/fastcluster.o
In file included from libgeoda/clustering/fastcluster.cpp:8:
libgeoda/clustering/fastcluster.h:912:35: warning: bitwise negation of a boolean expression; did you mean logical negation? [-Wbool-operation]
912 | NTF += (Xb(i,k) & ~Xb(j,k)) ;
| ^~~~~~~~
| !
1 warning generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/clustering/redcap.cpp -o libgeoda/clustering/redcap.o
libgeoda/clustering/redcap.cpp:392:9: warning: variable 'evaluated' set but not used [-Wunused-but-set-variable]
392 | int evaluated = 0;
| ^
libgeoda/clustering/redcap.cpp:529:25: warning: variable 'cnt' set but not used [-Wunused-but-set-variable]
529 | int cnt1=0, cnt2=0, cnt=0;
| ^
In file included from libgeoda/clustering/redcap.cpp:31:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/graph/prim_minimum_spanning_tree.hpp:15:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/graph/dijkstra_shortest_paths.hpp:26:
In file included from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include/boost/smart_ptr.hpp:17:
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;
| ^
libgeoda/clustering/redcap.cpp:698:11: note: in instantiation of template class 'boost::adjacency_list<boost::vecS, boost::vecS, boost::undirectedS, boost::no_property, boost::property<boost::edge_weight_t, double>>' requested here
698 | Graph g(rows);
| ^
/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")))
| ^
libgeoda/clustering/redcap.cpp:723:12: warning: variable 'sum_length' set but not used [-Wunused-but-set-variable]
723 | double sum_length=0;
| ^
libgeoda/clustering/redcap.cpp:990:9: warning: variable 'cnt' set but not used [-Wunused-but-set-variable]
990 | int cnt = 0;
| ^
libgeoda/clustering/redcap.cpp:1272:9: warning: variable 'cnt' set but not used [-Wunused-but-set-variable]
1272 | int cnt = 0;
| ^
6 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/clustering/redcap_wrapper.cpp -o libgeoda/clustering/redcap_wrapper.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/clustering/azp.cpp -o libgeoda/clustering/azp.o
libgeoda/clustering/azp.cpp:1448:9: warning: variable 'totalMoves' set but not used [-Wunused-but-set-variable]
1448 | int totalMoves = 0;
| ^
libgeoda/clustering/azp.cpp:1449:9: warning: variable 'acceptedMoves' set but not used [-Wunused-but-set-variable]
1449 | int acceptedMoves = 0;
| ^
2 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/clustering/maxp_wrapper.cpp -o libgeoda/clustering/maxp_wrapper.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/clustering/azp_wrapper.cpp -o libgeoda/clustering/azp_wrapper.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/clustering/schc_wrapper.cpp -o libgeoda/clustering/schc_wrapper.o
In file included from libgeoda/clustering/schc_wrapper.cpp:10:
libgeoda/clustering/fastcluster.h:912:35: warning: bitwise negation of a boolean expression; did you mean logical negation? [-Wbool-operation]
912 | NTF += (Xb(i,k) & ~Xb(j,k)) ;
| ^~~~~~~~
| !
libgeoda/clustering/schc_wrapper.cpp:121:24: warning: unused variable 'cut_distance' [-Wunused-variable]
121 | double cut_distance = cuttree (num_obs, htree, k, clusterid);
| ^~~~~~~~~~~~
2 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/clustering/cluster.cpp -o libgeoda/clustering/cluster.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/clustering/joincount_ratio.cpp -o libgeoda/clustering/joincount_ratio.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/clustering/make_spatial.cpp -o libgeoda/clustering/make_spatial.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/clustering/spatial_validation.cpp -o libgeoda/clustering/spatial_validation.o
In file included from libgeoda/clustering/spatial_validation.cpp:9:
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")))
| ^
1 warning generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/ANN.cpp -o libgeoda/knn/ANN.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/perf.cpp -o libgeoda/knn/perf.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/kd_util.cpp -o libgeoda/knn/kd_util.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/kd_tree.cpp -o libgeoda/knn/kd_tree.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/kd_split.cpp -o libgeoda/knn/kd_split.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/kd_search.cpp -o libgeoda/knn/kd_search.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/kd_pr_search.cpp -o libgeoda/knn/kd_pr_search.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/kd_fix_rad_search.cpp -o libgeoda/knn/kd_fix_rad_search.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/kd_dump.cpp -o libgeoda/knn/kd_dump.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/brute.cpp -o libgeoda/knn/brute.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/bd_tree.cpp -o libgeoda/knn/bd_tree.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/bd_search.cpp -o libgeoda/knn/bd_search.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/bd_pr_search.cpp -o libgeoda/knn/bd_pr_search.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c libgeoda/knn/bd_fix_rad_search.cpp -o libgeoda/knn/bd_fix_rad_search.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c rcpp_rgeoda.cpp -o rcpp_rgeoda.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c rcpp_weights.cpp -o rcpp_weights.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c rcpp_utils.cpp -o rcpp_utils.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c rcpp_lisa.cpp -o rcpp_lisa.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/BH/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O3 -Wall -pedantic -c rcpp_clustering.cpp -o rcpp_clustering.o
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG -I./libgeoda -D__USE_PTHREAD__ -D__RGEODA__ -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/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 -shared -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -Wl,-O1 -o rgeoda.so ./libgeoda/libgeoda.o ./libgeoda/gda_sa.o ./libgeoda/gda_data.o ./libgeoda/gda_weights.o ./libgeoda/gda_clustering.o ./libgeoda/GenGeomAlgs.o ./libgeoda/GenUtils.o ./libgeoda/SpatialIndAlgs.o ./libgeoda/pg/geoms.o ./libgeoda/pg/utils.o ./libgeoda/shapelib/dbfopen.o ./libgeoda/shapelib/safileio.o ./libgeoda/shapelib/shpopen.o ./libgeoda/weights/PointsToContigWeights.o ./libgeoda/weights/PolysToContigWeights.o ./libgeoda/weights/GalWeight.o ./libgeoda/weights/GwtWeight.o ./libgeoda/weights/GeodaWeight.o ./libgeoda/weights/VoronoiUtils.o ./libgeoda/sa/BatchLISA.o ./libgeoda/sa/BatchLocalMoran.o ./libgeoda/sa/LISA.o ./libgeoda/sa/MultiGeary.o ./libgeoda/sa/MultiJoinCount.o ./libgeoda/sa/UniG.o ./libgeoda/sa/UniGeary.o ./libgeoda/sa/UniGstar.o ./libgeoda/sa/UniJoinCount.o ./libgeoda/sa/UniLocalMoran.o ./libgeoda/sa/BiLocalMoran.o ./libgeoda/clustering/fastcluster.o ./libgeoda/clustering/redcap.o ./libgeoda/clustering/redcap_wrapper.o ./libgeoda/clustering/azp.o ./libgeoda/clustering/maxp_wrapper.o ./libgeoda/clustering/azp_wrapper.o ./libgeoda/clustering/schc_wrapper.o ./libgeoda/clustering/cluster.o ./libgeoda/clustering/joincount_ratio.o ./libgeoda/clustering/make_spatial.o ./libgeoda/clustering/spatial_validation.o ./libgeoda/knn/ANN.o ./libgeoda/knn/perf.o ./libgeoda/knn/kd_util.o ./libgeoda/knn/kd_tree.o ./libgeoda/knn/kd_split.o ./libgeoda/knn/kd_search.o ./libgeoda/knn/kd_pr_search.o ./libgeoda/knn/kd_fix_rad_search.o ./libgeoda/knn/kd_dump.o ./libgeoda/knn/brute.o ./libgeoda/knn/bd_tree.o ./libgeoda/knn/bd_search.o ./libgeoda/knn/bd_pr_search.o ./libgeoda/knn/bd_fix_rad_search.o rcpp_rgeoda.o rcpp_weights.o rcpp_utils.o rcpp_lisa.o rcpp_clustering.o RcppExports.o -pthread -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpBEWnDL/R.INSTALL7557133519f98/rgeoda/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpBEWnDL/R.INSTALL7557133519f98/rgeoda/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpBEWnDL/R.INSTALL7557133519f98/rgeoda/src'
installing to /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/00LOCK-rgeoda/00new/rgeoda/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (rgeoda)