* installing *source* package ‘reems’ ...
** this is package ‘reems’ version ‘0.1.0’
** using staged installation
** libs
specified C++17
using C++ compiler: ‘Debian clang version 21.1.8 (3+b1)’
using C++17
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic   -c RcppExports.cpp -o RcppExports.o
In file included from RcppExports.cpp:4:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:61:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from RcppExports.cpp:4:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseLU:35:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
In file included from RcppExports.cpp:4:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:31:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from RcppExports.cpp:4:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
5 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic   -c draw.cpp -o draw.o
In file included from draw.cpp:2:
In file included from ./draw.h:11:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:61:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from draw.cpp:2:
In file included from ./draw.h:11:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseLU:35:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
In file included from draw.cpp:2:
In file included from ./draw.h:11:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:31:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from draw.cpp:2:
In file included from ./draw.h:11:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
5 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic   -c eems.cpp -o eems.o
In file included from eems.cpp:2:
In file included from ./eems.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:61:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from eems.cpp:2:
In file included from ./eems.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseLU:35:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
In file included from eems.cpp:2:
In file included from ./eems.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:31:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from eems.cpp:2:
In file included from ./eems.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
In file included from eems.cpp:2:
In file included from ./eems.h:6:
In file included from ./graph.h:4:
In file included from ./habitat.h:5:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry.hpp:17:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/geometry.hpp:63:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/buffer.hpp:22:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/implementation.hpp:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/buffer_inserter.hpp:30:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/buffered_piece_collection.hpp:33:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/covered_by.hpp:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/covered_by/implementation_gc.hpp:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/relate/implementation_gc.hpp:18:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/difference.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/intersection/gc.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/intersection/interface.hpp:18:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/intersection_insert.hpp:34:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/overlay.hpp:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/traverse.hpp:20:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/graph/detect_biconnected_components.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/graph/graph_util.hpp:13:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/scoped_ptr.hpp:13:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/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/lib/R/Library/4.7/x86_64-linux-gnu/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/lib/R/Library/4.7/x86_64-linux-gnu/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")))
      |                   ^
eems.cpp:258:10: warning: unused variable 'triDeltaQD' [-Wunused-variable]
  258 |   double triDeltaQD, ll_atfixdf;
      |          ^~~~~~~~~~
eems.cpp:258:22: warning: unused variable 'll_atfixdf' [-Wunused-variable]
  258 |   double triDeltaQD, ll_atfixdf;
      |                      ^~~~~~~~~~
8 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic   -c graph.cpp -o graph.o
In file included from graph.cpp:6:
In file included from ./graph.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:61:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from graph.cpp:6:
In file included from ./graph.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseLU:35:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
In file included from graph.cpp:6:
In file included from ./graph.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:31:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from graph.cpp:6:
In file included from ./graph.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
In file included from graph.cpp:6:
In file included from ./graph.h:4:
In file included from ./habitat.h:5:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry.hpp:17:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/geometry.hpp:63:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/buffer.hpp:22:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/implementation.hpp:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/buffer_inserter.hpp:30:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/buffered_piece_collection.hpp:33:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/covered_by.hpp:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/covered_by/implementation_gc.hpp:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/relate/implementation_gc.hpp:18:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/difference.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/intersection/gc.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/intersection/interface.hpp:18:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/intersection_insert.hpp:34:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/overlay.hpp:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/traverse.hpp:20:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/graph/detect_biconnected_components.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/graph/graph_util.hpp:13:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/scoped_ptr.hpp:13:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/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/lib/R/Library/4.7/x86_64-linux-gnu/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/lib/R/Library/4.7/x86_64-linux-gnu/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")))
      |                   ^
graph.cpp:48:7: warning: unused variable 'oDemes' [-Wunused-variable]
   48 |   int oDemes = get_num_obsrv_demes();
      |       ^~~~~~
graph.cpp:140:7: warning: unused variable 'nEdges' [-Wunused-variable]
  140 |   int nEdges = DemePairs.rows();
      |       ^~~~~~
8 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic   -c habitat.cpp -o habitat.o
In file included from habitat.cpp:6:
In file included from ./habitat.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:61:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from habitat.cpp:6:
In file included from ./habitat.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseLU:35:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
In file included from habitat.cpp:6:
In file included from ./habitat.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:31:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from habitat.cpp:6:
In file included from ./habitat.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
In file included from habitat.cpp:6:
In file included from ./habitat.h:5:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry.hpp:17:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/geometry.hpp:63:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/buffer.hpp:22:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/implementation.hpp:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/buffer_inserter.hpp:30:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/buffered_piece_collection.hpp:33:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/covered_by.hpp:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/covered_by/implementation_gc.hpp:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/relate/implementation_gc.hpp:18:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/difference.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/intersection/gc.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/intersection/interface.hpp:18:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/intersection_insert.hpp:34:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/overlay.hpp:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/traverse.hpp:20:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/graph/detect_biconnected_components.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/graph/graph_util.hpp:13:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/scoped_ptr.hpp:13:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/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/lib/R/Library/4.7/x86_64-linux-gnu/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/lib/R/Library/4.7/x86_64-linux-gnu/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")))
      |                   ^
6 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic   -c mcmc.cpp -o mcmc.o
In file included from mcmc.cpp:6:
In file included from ./mcmc.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:61:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from mcmc.cpp:6:
In file included from ./mcmc.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseLU:35:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
In file included from mcmc.cpp:6:
In file included from ./mcmc.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:31:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from mcmc.cpp:6:
In file included from ./mcmc.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
5 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic   -c reems.cpp -o reems.o
In file included from reems.cpp:4:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:61:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from reems.cpp:4:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseLU:35:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
In file included from reems.cpp:4:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:31:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from reems.cpp:4:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
In file included from reems.cpp:6:
In file included from ./habitat.h:5:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry.hpp:17:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/geometry.hpp:63:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/buffer.hpp:22:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/implementation.hpp:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/buffer_inserter.hpp:30:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/buffered_piece_collection.hpp:33:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/covered_by.hpp:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/covered_by/implementation_gc.hpp:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/relate/implementation_gc.hpp:18:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/difference.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/intersection/gc.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/intersection/interface.hpp:18:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/intersection_insert.hpp:34:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/overlay.hpp:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/traverse.hpp:20:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/graph/detect_biconnected_components.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/graph/graph_util.hpp:13:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/scoped_ptr.hpp:13:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/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/lib/R/Library/4.7/x86_64-linux-gnu/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/lib/R/Library/4.7/x86_64-linux-gnu/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")))
      |                   ^
6 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic   -c runeems_snps.cpp -o runeems_snps.o
In file included from runeems_snps.cpp:6:
In file included from ./eems.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:61:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from runeems_snps.cpp:6:
In file included from ./eems.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseLU:35:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
In file included from runeems_snps.cpp:6:
In file included from ./eems.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:31:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from runeems_snps.cpp:6:
In file included from ./eems.h:3:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
In file included from runeems_snps.cpp:6:
In file included from ./eems.h:6:
In file included from ./graph.h:4:
In file included from ./habitat.h:5:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry.hpp:17:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/geometry.hpp:63:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/buffer.hpp:22:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/implementation.hpp:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/buffer_inserter.hpp:30:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/buffer/buffered_piece_collection.hpp:33:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/covered_by.hpp:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/covered_by/implementation_gc.hpp:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/relate/implementation_gc.hpp:18:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/difference.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/intersection/gc.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/intersection/interface.hpp:18:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/intersection_insert.hpp:34:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/overlay.hpp:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/traverse.hpp:20:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/graph/detect_biconnected_components.hpp:19:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/geometry/algorithms/detail/overlay/graph/graph_util.hpp:13:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/graph/adjacency_list.hpp:22:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include/boost/scoped_ptr.hpp:13:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/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/lib/R/Library/4.7/x86_64-linux-gnu/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/lib/R/Library/4.7/x86_64-linux-gnu/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")))
      |                   ^
6 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic   -c util.cpp -o util.o
In file included from util.cpp:6:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:61:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from util.cpp:6:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseLU:35:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
In file included from util.cpp:6:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:31:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from util.cpp:6:
In file included from ./util.h:16:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
5 warnings generated.
clang++-21 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-21/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O3 -Wall -pedantic   -c voronoi2raster.cpp -o voronoi2raster.o
In file included from voronoi2raster.cpp:7:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:61:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  273 |       Index count = 0;
      |             ^
In file included from voronoi2raster.cpp:7:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:29:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseLU:35:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable]
   78 |   Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree 
      |         ^
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable]
   79 |   Index nsuper_et = 0; // Number of relaxed snodes in the original etree 
      |         ^
In file included from voronoi2raster.cpp:7:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:31:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable]
   72 |                         Index replacements = 0;
      |                               ^
In file included from voronoi2raster.cpp:7:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:37:
In file included from /home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/home/hornik/lib/R/Library/4.7/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable]
  246 |   int count = 0;
      |       ^
voronoi2raster.cpp:15:14: warning: unused variable 'pi_180' [-Wunused-const-variable]
   15 | const double pi_180 = M_PI / 180.0;
      |              ^~~~~~
6 warnings generated.
clang++-21 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-clang-21/lib -Wl,-O1 -o reems.so RcppExports.o draw.o eems.o graph.o habitat.o mcmc.o reems.o runeems_snps.o util.o voronoi2raster.o -L/home/hornik/tmp/R-d-clang-21/lib -lR
installing to /srv/hornik/tmp/CRAN_pretest/reems.Rcheck/00LOCK-reems/00new/reems/libs
** R
** data
*** moving datasets to lazyload DB
** 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 (reems)