* installing *source* package ‘psqn’ ...
** package ‘psqn’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘clang version 18.1.4’
using C++11
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/psqn/src'
/usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/testthat/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -I../inst/include/ -fopenmp -DPSQN_W_LAPACK -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c RcppExports.cpp -o RcppExports.o
/usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/testthat/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -I../inst/include/ -fopenmp -DPSQN_W_LAPACK -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c r-api.cpp -o r-api.o
In file included from RcppExports.cpp:5:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/gannet/ripley/R/test-clang/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:5:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/gannet/ripley/R/test-clang/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
| ^
/data/gannet/ripley/R/test-clang/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:5:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/data/gannet/ripley/R/test-clang/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:5:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/data/gannet/ripley/R/test-clang/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 r-api.cpp:6:
In file included from ../inst/include/psqn-Rcpp-wrapper.h:9:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:26:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseCore:61:
/data/gannet/ripley/R/test-clang/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 r-api.cpp:6:
In file included from ../inst/include/psqn-Rcpp-wrapper.h:9:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/Sparse:29:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/SparseLU:35:
/data/gannet/ripley/R/test-clang/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
| ^
/data/gannet/ripley/R/test-clang/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 r-api.cpp:6:
In file included from ../inst/include/psqn-Rcpp-wrapper.h:9:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:31:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46:
/data/gannet/ripley/R/test-clang/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 r-api.cpp:6:
In file included from ../inst/include/psqn-Rcpp-wrapper.h:9:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:37:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/unsupported/Eigen/SparseExtra:45:
/data/gannet/ripley/R/test-clang/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.
/usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/testthat/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -I../inst/include/ -fopenmp -DPSQN_W_LAPACK -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c test-intrapolate.cpp -o test-intrapolate.o
In file included from r-api.cpp:6:
In file included from ../inst/include/psqn-Rcpp-wrapper.h:9:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigen.h:25:
In file included from /data/gannet/ripley/R/test-clang/RcppEigen/include/RcppEigenForward.h:26:
In file included from /data/gannet/ripley/R/test-clang/Rcpp/include/RcppCommon.h:30:
In file included from /data/gannet/ripley/R/test-clang/Rcpp/include/Rcpp/r/headers.h:62:
In file included from /data/gannet/ripley/R/test-clang/Rcpp/include/Rcpp/platform/compiler.h:153:
In file included from /usr/local/clang18/bin/../include/c++/v1/unordered_map:598:
/usr/local/clang18/bin/../include/c++/v1/__memory/allocator.h:176:81: warning: destructor called on non-final 'r_worker_psqn' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor]
176 | _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_HIDE_FROM_ABI void destroy(pointer __p) { __p->~_Tp(); }
| ^
/usr/local/clang18/bin/../include/c++/v1/__memory/allocator_traits.h:311:9: note: in instantiation of member function 'std::allocator<r_worker_psqn>::destroy' requested here
311 | __a.destroy(__p);
| ^
/usr/local/clang18/bin/../include/c++/v1/vector:926:23: note: in instantiation of function template specialization 'std::allocator_traits<std::allocator<r_worker_psqn>>::destroy<r_worker_psqn, void>' requested here
926 | __alloc_traits::destroy(__alloc(), std::__to_address(--__soon_to_be_end));
| ^
/usr/local/clang18/bin/../include/c++/v1/vector:920:5: note: in instantiation of member function 'std::vector<r_worker_psqn>::__base_destruct_at_end' requested here
920 | __base_destruct_at_end(this->__begin_);
| ^
/usr/local/clang18/bin/../include/c++/v1/vector:490:16: note: in instantiation of member function 'std::vector<r_worker_psqn>::__clear' requested here
490 | __vec_.__clear();
| ^
/usr/local/clang18/bin/../include/c++/v1/vector:501:67: note: in instantiation of member function 'std::vector<r_worker_psqn>::__destroy_vector::operator()' requested here
501 | _LIBCPP_CONSTEXPR_SINCE_CXX20 _LIBCPP_HIDE_FROM_ABI ~vector() { __destroy_vector (*this)(); }
| ^
r-api.cpp:404:30: note: in instantiation of member function 'std::vector<r_worker_psqn>::~vector' requested here
404 | std::vector<r_worker_psqn> funcs;
| ^
/usr/local/clang18/bin/../include/c++/v1/__memory/allocator.h:176:87: note: qualify call to silence this warning
176 | _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_HIDE_FROM_ABI void destroy(pointer __p) { __p->~_Tp(); }
| ^
/usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/testthat/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -I../inst/include/ -fopenmp -DPSQN_W_LAPACK -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c test-lp.cpp -o test-lp.o
/usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/testthat/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -I../inst/include/ -fopenmp -DPSQN_W_LAPACK -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c test-richardson-extrapolation.cpp -o test-richardson-extrapolation.o
/usr/local/clang18/bin/../include/c++/v1/__memory/allocator.h:176:81: warning: destructor called on non-final 'r_worker_optimizer_generic' that has virtual functions but non-virtual destructor [-Wdelete-non-abstract-non-virtual-dtor]
176 | _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_HIDE_FROM_ABI void destroy(pointer __p) { __p->~_Tp(); }
| ^
/usr/local/clang18/bin/../include/c++/v1/__memory/allocator_traits.h:311:9: note: in instantiation of member function 'std::allocator<r_worker_optimizer_generic>::destroy' requested here
311 | __a.destroy(__p);
| ^
/usr/local/clang18/bin/../include/c++/v1/vector:926:23: note: in instantiation of function template specialization 'std::allocator_traits<std::allocator<r_worker_optimizer_generic>>::destroy<r_worker_optimizer_generic, void>' requested here
926 | __alloc_traits::destroy(__alloc(), std::__to_address(--__soon_to_be_end));
| ^
/usr/local/clang18/bin/../include/c++/v1/vector:920:5: note: in instantiation of member function 'std::vector<r_worker_optimizer_generic>::__base_destruct_at_end' requested here
920 | __base_destruct_at_end(this->__begin_);
| ^
/usr/local/clang18/bin/../include/c++/v1/vector:490:16: note: in instantiation of member function 'std::vector<r_worker_optimizer_generic>::__clear' requested here
490 | __vec_.__clear();
| ^
/usr/local/clang18/bin/../include/c++/v1/vector:501:67: note: in instantiation of member function 'std::vector<r_worker_optimizer_generic>::__destroy_vector::operator()' requested here
501 | _LIBCPP_CONSTEXPR_SINCE_CXX20 _LIBCPP_HIDE_FROM_ABI ~vector() { __destroy_vector (*this)(); }
| ^
r-api.cpp:1284:43: note: in instantiation of member function 'std::vector<r_worker_optimizer_generic>::~vector' requested here
1284 | std::vector<r_worker_optimizer_generic> funcs;
| ^
/usr/local/clang18/bin/../include/c++/v1/__memory/allocator.h:176:87: note: qualify call to silence this warning
176 | _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_HIDE_FROM_ABI void destroy(pointer __p) { __p->~_Tp(); }
| ^
/usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/RcppEigen/include' -I'/data/gannet/ripley/R/test-clang/testthat/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -I../inst/include/ -fopenmp -DPSQN_W_LAPACK -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c test-runner.cpp -o test-runner.o
7 warnings generated.
/usr/local/clang18/bin/clang++ -std=gnu++11 -shared -L/usr/local/clang/lib64 -L/usr/local/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -o psqn.so RcppExports.o r-api.o test-intrapolate.o test-lp.o test-richardson-extrapolation.o test-runner.o -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lFortran_main -lFortranRuntime -lFortranDecimal -lm -fopenmp
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/psqn/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/psqn/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/psqn/src'
installing to /data/gannet/ripley/R/packages/tests-clang/psqn.Rcheck/00LOCK-psqn/00new/psqn/libs
** R
** 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 (psqn)