* installing *source* package ‘bsvars’ ... ** package ‘bsvars’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘Intel(R) oneAPI DPC++/C++ Compiler 2024.2.0 (2024.2.0.20240602)’ make[2]: Entering directory '/data/gannet/ripley/R/packages/tests-Intel/bsvars/src' /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c RcppExports.cpp -o RcppExports.o /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c bsvar.cpp -o bsvar.o In file included from RcppExports.cpp:4: In file included from ./../inst/include/bsvars.h:7: In file included from ./../inst/include/bsvars_RcppExports.h:7: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ In file included from bsvar.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c bsvarTOOLs.cpp -o bsvarTOOLs.o In file included from bsvarTOOLs.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c bsvar_msh.cpp -o bsvar_msh.o In file included from bsvar_msh.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ 3 warnings generated. /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c bsvar_sv.cpp -o bsvar_sv.o In file included from bsvarTOOLs.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /data/gannet2/ripley/R/test-MKL/Rcpp/include/RcppCommon.h:62: In file included from /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/functional:64: In file included from /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:61: /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:263:8: warning: 'get_temporary_buffer>' is deprecated [-Wdeprecated-declarations] 263 | std::get_temporary_buffer(_M_original_len)); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:4996:15: note: in instantiation of member function 'std::_Temporary_buffer<__gnu_cxx::__normal_iterator *, std::vector>>, arma::arma_sort_index_packet>::_Temporary_buffer' requested here 4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:5070:23: note: in instantiation of function template specialization 'std::__stable_sort<__gnu_cxx::__normal_iterator *, std::vector>>, __gnu_cxx::__ops::_Iter_comp_iter>>' requested here 5070 | _GLIBCXX_STD_A::__stable_sort(__first, __last, | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:85:12: note: in instantiation of function template specialization 'std::stable_sort<__gnu_cxx::__normal_iterator *, std::vector>>, arma::arma_sort_index_helper_ascend>' requested here 85 | std::stable_sort( packet_vec.begin(), packet_vec.end(), comparator ); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:123:10: note: in instantiation of function template specialization 'arma::arma_sort_index_helper, false>' requested here 123 | return arma_sort_index_helper(out, P, sort_type); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:147:34: note: in instantiation of function template specialization 'arma::op_sort_index::apply_noalias>' requested here 147 | all_non_nan = op_sort_index::apply_noalias(out2, P, sort_type); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:5234:12: note: (skipping 3 contexts in backtrace; use -ftemplate-backtrace-limit=0 to see all) 5234 | op_type::apply(*this, X); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_inv_gen_meat.hpp:140:48: note: in instantiation of function template specialization 'arma::op_pinv::apply_sym' requested here 140 | if(inv_state.is_sym ) { return op_pinv::apply_sym (out, A, T(0), uword(0)); } | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_inv_gen_meat.hpp:49:27: note: in instantiation of function template specialization 'arma::op_inv_gen_full::apply_direct, false>' requested here 49 | return op_inv_gen_full::apply_direct(out, expr, caller_sig, uword(0)); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_inv_gen_meat.hpp:31:43: note: in instantiation of function template specialization 'arma::op_inv_gen_default::apply_direct>' requested here 31 | const bool status = op_inv_gen_default::apply_direct(out, X.m, "inv()"); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:4945:12: note: in instantiation of function template specialization 'arma::op_inv_gen_default::apply>' requested here 4945 | op_type::apply(*this, X); | ^ bsvarTOOLs.cpp:25:27: note: in instantiation of function template specialization 'arma::Mat::Mat, arma::op_inv_gen_default>' requested here 25 | mat irf_0 = inv(aux_B); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:99:5: note: 'get_temporary_buffer>' has been explicitly marked deprecated here 99 | _GLIBCXX17_DEPRECATED | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/x86_64-redhat-linux/bits/c++config.h:2359:34: note: expanded from macro '_GLIBCXX17_DEPRECATED' 2359 | # define _GLIBCXX17_DEPRECATED [[__deprecated__]] | ^ In file included from bsvar_sv.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ 3 warnings generated. /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c forecast.cpp -o forecast.o In file included from forecast.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ 3 warnings generated. /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c msh.cpp -o msh.o 4 warnings generated. In file included from msh.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ In file included from forecast.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /data/gannet2/ripley/R/test-MKL/Rcpp/include/RcppCommon.h:62: In file included from /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/functional:64: In file included from /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:61: /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:263:8: warning: 'get_temporary_buffer>' is deprecated [-Wdeprecated-declarations] 263 | std::get_temporary_buffer(_M_original_len)); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:4996:15: note: in instantiation of member function 'std::_Temporary_buffer<__gnu_cxx::__normal_iterator *, std::vector>>, arma::arma_sort_index_packet>::_Temporary_buffer' requested here 4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:5070:23: note: in instantiation of function template specialization 'std::__stable_sort<__gnu_cxx::__normal_iterator *, std::vector>>, __gnu_cxx::__ops::_Iter_comp_iter>>' requested here 5070 | _GLIBCXX_STD_A::__stable_sort(__first, __last, | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:85:12: note: in instantiation of function template specialization 'std::stable_sort<__gnu_cxx::__normal_iterator *, std::vector>>, arma::arma_sort_index_helper_ascend>' requested here 85 | std::stable_sort( packet_vec.begin(), packet_vec.end(), comparator ); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:123:10: note: in instantiation of function template specialization 'arma::arma_sort_index_helper, false>' requested here 123 | return arma_sort_index_helper(out, P, sort_type); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:147:34: note: in instantiation of function template specialization 'arma::op_sort_index::apply_noalias>' requested here 147 | all_non_nan = op_sort_index::apply_noalias(out2, P, sort_type); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:5234:12: note: (skipping 3 contexts in backtrace; use -ftemplate-backtrace-limit=0 to see all) 5234 | op_type::apply(*this, X); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_inv_spd_meat.hpp:141:23: note: in instantiation of function template specialization 'arma::op_pinv::apply_sym' requested here 141 | return op_pinv::apply_sym(out, A, T(0), uword(0)); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_inv_spd_meat.hpp:49:27: note: in instantiation of function template specialization 'arma::op_inv_spd_full::apply_direct, arma::op_htrans>, arma::Mat, arma::glue_times>, false>' requested here 49 | return op_inv_spd_full::apply_direct(out, expr, uword(0)); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_inv_spd_meat.hpp:31:43: note: in instantiation of function template specialization 'arma::op_inv_spd_default::apply_direct, arma::op_htrans>, arma::Mat, arma::glue_times>>' requested here 31 | const bool status = op_inv_spd_default::apply_direct(out, X.m); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:4945:12: note: in instantiation of function template specialization 'arma::op_inv_spd_default::apply, arma::op_htrans>, arma::Mat, arma::glue_times>>' requested here 4945 | op_type::apply(*this, X); | ^ forecast.cpp:30:21: note: in instantiation of function template specialization 'arma::Mat::Mat, arma::op_htrans>, arma::Mat, arma::glue_times>, arma::op_inv_spd_default>' requested here 30 | mat Sigma = inv_sympd(trans(posterior_B.slice(s)) * posterior_B.slice(s)); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:99:5: note: 'get_temporary_buffer>' has been explicitly marked deprecated here 99 | _GLIBCXX17_DEPRECATED | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/x86_64-redhat-linux/bits/c++config.h:2359:34: note: expanded from macro '_GLIBCXX17_DEPRECATED' 2359 | # define _GLIBCXX17_DEPRECATED [[__deprecated__]] | ^ 3 warnings generated. /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c normalisation.cpp -o normalisation.o In file included from normalisation.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ 4 warnings generated. /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c sample.cpp -o sample.o In file included from sample.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadilloExtensions/sample.h:30: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadilloExtensions/fixprob.h:25: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ In file included from normalisation.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /data/gannet2/ripley/R/test-MKL/Rcpp/include/RcppCommon.h:62: In file included from /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/functional:64: In file included from /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:61: /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:263:8: warning: 'get_temporary_buffer>' is deprecated [-Wdeprecated-declarations] 263 | std::get_temporary_buffer(_M_original_len)); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:4996:15: note: in instantiation of member function 'std::_Temporary_buffer<__gnu_cxx::__normal_iterator *, std::vector>>, arma::arma_sort_index_packet>::_Temporary_buffer' requested here 4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:5070:23: note: in instantiation of function template specialization 'std::__stable_sort<__gnu_cxx::__normal_iterator *, std::vector>>, __gnu_cxx::__ops::_Iter_comp_iter>>' requested here 5070 | _GLIBCXX_STD_A::__stable_sort(__first, __last, | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:85:12: note: in instantiation of function template specialization 'std::stable_sort<__gnu_cxx::__normal_iterator *, std::vector>>, arma::arma_sort_index_helper_ascend>' requested here 85 | std::stable_sort( packet_vec.begin(), packet_vec.end(), comparator ); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:123:10: note: in instantiation of function template specialization 'arma::arma_sort_index_helper, false>' requested here 123 | return arma_sort_index_helper(out, P, sort_type); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:147:34: note: in instantiation of function template specialization 'arma::op_sort_index::apply_noalias>' requested here 147 | all_non_nan = op_sort_index::apply_noalias(out2, P, sort_type); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:5234:12: note: (skipping 3 contexts in backtrace; use -ftemplate-backtrace-limit=0 to see all) 5234 | op_type::apply(*this, X); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_inv_gen_meat.hpp:140:48: note: in instantiation of function template specialization 'arma::op_pinv::apply_sym' requested here 140 | if(inv_state.is_sym ) { return op_pinv::apply_sym (out, A, T(0), uword(0)); } | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_inv_gen_meat.hpp:49:27: note: in instantiation of function template specialization 'arma::op_inv_gen_full::apply_direct, arma::op_diagmat>, arma::Mat, arma::glue_times_diag>, false>' requested here 49 | return op_inv_gen_full::apply_direct(out, expr, caller_sig, uword(0)); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_inv_gen_meat.hpp:31:43: note: in instantiation of function template specialization 'arma::op_inv_gen_default::apply_direct, arma::op_diagmat>, arma::Mat, arma::glue_times_diag>>' requested here 31 | const bool status = op_inv_gen_default::apply_direct(out, X.m, "inv()"); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:4945:12: note: in instantiation of function template specialization 'arma::op_inv_gen_default::apply, arma::op_diagmat>, arma::Mat, arma::glue_times_diag>>' requested here 4945 | op_type::apply(*this, X); | ^ normalisation.cpp:24:25: note: in instantiation of function template specialization 'arma::Mat::Mat, arma::op_diagmat>, arma::Mat, arma::glue_times_diag>, arma::op_inv_gen_default>' requested here 24 | mat B_tmp_inv = inv(diagmat(diag_signs.row(k)) * B); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:99:5: note: 'get_temporary_buffer>' has been explicitly marked deprecated here 99 | _GLIBCXX17_DEPRECATED | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/x86_64-redhat-linux/bits/c++config.h:2359:34: note: expanded from macro '_GLIBCXX17_DEPRECATED' 2359 | # define _GLIBCXX17_DEPRECATED [[__deprecated__]] | ^ 4 warnings generated. /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c sample_ABhyper.cpp -o sample_ABhyper.o 3 warnings generated. /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c sv.cpp -o sv.o In file included from sample_ABhyper.cpp:3: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ In file included from sv.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ In file included from sample.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadilloExtensions/sample.h:30: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadilloExtensions/fixprob.h:25: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /data/gannet2/ripley/R/test-MKL/Rcpp/include/RcppCommon.h:62: In file included from /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/functional:64: In file included from /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:61: /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:263:8: warning: 'get_temporary_buffer>' is deprecated [-Wdeprecated-declarations] 263 | std::get_temporary_buffer(_M_original_len)); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:4996:15: note: in instantiation of member function 'std::_Temporary_buffer<__gnu_cxx::__normal_iterator *, std::vector>>, arma::arma_sort_index_packet>::_Temporary_buffer' requested here 4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:5070:23: note: in instantiation of function template specialization 'std::__stable_sort<__gnu_cxx::__normal_iterator *, std::vector>>, __gnu_cxx::__ops::_Iter_comp_iter>>' requested here 5070 | _GLIBCXX_STD_A::__stable_sort(__first, __last, | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:85:12: note: in instantiation of function template specialization 'std::stable_sort<__gnu_cxx::__normal_iterator *, std::vector>>, arma::arma_sort_index_helper_ascend>' requested here 85 | std::stable_sort( packet_vec.begin(), packet_vec.end(), comparator ); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:123:10: note: in instantiation of function template specialization 'arma::arma_sort_index_helper, false>' requested here 123 | return arma_sort_index_helper(out, P, sort_type); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:147:34: note: in instantiation of function template specialization 'arma::op_sort_index::apply_noalias>' requested here 147 | all_non_nan = op_sort_index::apply_noalias(out2, P, sort_type); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:5234:12: note: in instantiation of function template specialization 'arma::op_sort_index::apply>' requested here 5234 | op_type::apply(*this, X); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Col_meat.hpp:522:12: note: in instantiation of function template specialization 'arma::Mat::operator=, arma::op_sort_index>' requested here 522 | Mat::operator=(X.get_ref()); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadilloExtensions/sample.h:151:31: note: in instantiation of function template specialization 'arma::Col::Col, arma::op_sort_index>>' requested here 151 | arma::uvec perm = arma::sort_index(prob, "descend"); //descending sort of index | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:99:5: note: 'get_temporary_buffer>' has been explicitly marked deprecated here 99 | _GLIBCXX17_DEPRECATED | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/x86_64-redhat-linux/bits/c++config.h:2359:34: note: expanded from macro '_GLIBCXX17_DEPRECATED' 2359 | # define _GLIBCXX17_DEPRECATED [[__deprecated__]] | ^ /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c utils.cpp -o utils.o 4 warnings generated. /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -I"/data/gannet/ripley/R/Intel/include" -DNDEBUG -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DSTRICT_R_HEADERS -I'/data/gannet2/ripley/R/test-MKL/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppProgress/include' -I'/data/gannet2/ripley/R/test-MKL/RcppArmadillo/include' -I'/data/gannet2/ripley/R/test-MKL/RcppTN/include' -I/usr/local/include -fpic -O3 -fp-model precise -Wall -c verify.cpp -o verify.o In file included from utils.cpp:2: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ In file included from verify.cpp:1: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo:26: /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:326:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] 326 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:331:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] 331 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/config.hpp:334:11: warning: INFO: see the documentation for details [-W#pragma-messages] 334 | #pragma message ("INFO: see the documentation for details") | ^ In file included from sample_ABhyper.cpp:3: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /data/gannet2/ripley/R/test-MKL/Rcpp/include/RcppCommon.h:62: In file included from /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/functional:64: In file included from /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:61: /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:263:8: warning: 'get_temporary_buffer>' is deprecated [-Wdeprecated-declarations] 263 | std::get_temporary_buffer(_M_original_len)); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:4996:15: note: in instantiation of member function 'std::_Temporary_buffer<__gnu_cxx::__normal_iterator *, std::vector>>, arma::arma_sort_index_packet>::_Temporary_buffer' requested here 4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:5070:23: note: in instantiation of function template specialization 'std::__stable_sort<__gnu_cxx::__normal_iterator *, std::vector>>, __gnu_cxx::__ops::_Iter_comp_iter>>' requested here 5070 | _GLIBCXX_STD_A::__stable_sort(__first, __last, | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:85:12: note: in instantiation of function template specialization 'std::stable_sort<__gnu_cxx::__normal_iterator *, std::vector>>, arma::arma_sort_index_helper_ascend>' requested here 85 | std::stable_sort( packet_vec.begin(), packet_vec.end(), comparator ); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:123:10: note: in instantiation of function template specialization 'arma::arma_sort_index_helper, false>' requested here 123 | return arma_sort_index_helper(out, P, sort_type); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:147:34: note: in instantiation of function template specialization 'arma::op_sort_index::apply_noalias>' requested here 147 | all_non_nan = op_sort_index::apply_noalias(out2, P, sort_type); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:5234:12: note: (skipping 6 contexts in backtrace; use -ftemplate-backtrace-limit=0 to see all) 5234 | op_type::apply(*this, X); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:4945:12: note: in instantiation of function template specialization 'arma::op_inv_spd_default::apply>' requested here 4945 | op_type::apply(*this, X); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Proxy.hpp:456:7: note: in instantiation of function template specialization 'arma::Mat::Mat, arma::op_inv_spd_default>' requested here 456 | : Q(A) | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/eOp_meat.hpp:37:5: note: in instantiation of member function 'arma::Proxy, arma::op_inv_spd_default>>::Proxy' requested here 37 | : P(in_m) | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/operator_times.hpp:47:10: note: in instantiation of member function 'arma::eOp, arma::op_inv_spd_default>, arma::eop_scalar_times>::eOp' requested here 47 | return eOp(X,k); // NOTE: order is swapped | ^ sample_ABhyper.cpp:125:49: note: in instantiation of function template specialization 'arma::operator*, arma::op_inv_spd_default>>' requested here 125 | mat Un = chol(posterior_nu * inv_sympd(posterior_S_inv)); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:99:5: note: 'get_temporary_buffer>' has been explicitly marked deprecated here 99 | _GLIBCXX17_DEPRECATED | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/x86_64-redhat-linux/bits/c++config.h:2359:34: note: expanded from macro '_GLIBCXX17_DEPRECATED' 2359 | # define _GLIBCXX17_DEPRECATED [[__deprecated__]] | ^ 3 warnings generated. In file included from verify.cpp:1: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25: In file included from /data/gannet2/ripley/R/test-MKL/Rcpp/include/RcppCommon.h:62: In file included from /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/functional:64: In file included from /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:61: /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:263:8: warning: 'get_temporary_buffer>' is deprecated [-Wdeprecated-declarations] 263 | std::get_temporary_buffer(_M_original_len)); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:4996:15: note: in instantiation of member function 'std::_Temporary_buffer<__gnu_cxx::__normal_iterator *, std::vector>>, arma::arma_sort_index_packet>::_Temporary_buffer' requested here 4996 | _TmpBuf __buf(__first, (__last - __first + 1) / 2); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_algo.h:5070:23: note: in instantiation of function template specialization 'std::__stable_sort<__gnu_cxx::__normal_iterator *, std::vector>>, __gnu_cxx::__ops::_Iter_comp_iter>>' requested here 5070 | _GLIBCXX_STD_A::__stable_sort(__first, __last, | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:85:12: note: in instantiation of function template specialization 'std::stable_sort<__gnu_cxx::__normal_iterator *, std::vector>>, arma::arma_sort_index_helper_ascend>' requested here 85 | std::stable_sort( packet_vec.begin(), packet_vec.end(), comparator ); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:123:10: note: in instantiation of function template specialization 'arma::arma_sort_index_helper, false>' requested here 123 | return arma_sort_index_helper(out, P, sort_type); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_sort_index_meat.hpp:147:34: note: in instantiation of function template specialization 'arma::op_sort_index::apply_noalias>' requested here 147 | all_non_nan = op_sort_index::apply_noalias(out2, P, sort_type); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:5234:12: note: (skipping 3 contexts in backtrace; use -ftemplate-backtrace-limit=0 to see all) 5234 | op_type::apply(*this, X); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_inv_spd_meat.hpp:141:23: note: in instantiation of function template specialization 'arma::op_pinv::apply_sym' requested here 141 | return op_pinv::apply_sym(out, A, T(0), uword(0)); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_inv_spd_meat.hpp:49:27: note: in instantiation of function template specialization 'arma::op_inv_spd_full::apply_direct, false>' requested here 49 | return op_inv_spd_full::apply_direct(out, expr, uword(0)); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/op_inv_spd_meat.hpp:31:43: note: in instantiation of function template specialization 'arma::op_inv_spd_default::apply_direct>' requested here 31 | const bool status = op_inv_spd_default::apply_direct(out, X.m); | ^ /data/gannet2/ripley/R/test-MKL/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:4945:12: note: in instantiation of function template specialization 'arma::op_inv_spd_default::apply>' requested here 4945 | op_type::apply(*this, X); | ^ verify.cpp:298:27: note: in instantiation of function template specialization 'arma::Mat::Mat, arma::op_inv_spd_default>' requested here 298 | mat prec = inv_sympd(var); | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/bits/stl_tempbuf.h:99:5: note: 'get_temporary_buffer>' has been explicitly marked deprecated here 99 | _GLIBCXX17_DEPRECATED | ^ /usr/lib/gcc/x86_64-redhat-linux/12/../../../../include/c++/12/x86_64-redhat-linux/bits/c++config.h:2359:34: note: expanded from macro '_GLIBCXX17_DEPRECATED' 2359 | # define _GLIBCXX17_DEPRECATED [[__deprecated__]] | ^ 3 warnings generated. 4 warnings generated. 4 warnings generated. /data/gannet/ripley/intel/oneapi/compiler/2024.2//bin/icpx -std=gnu++17 -shared -L/data/gannet/ripley/intel/oneapi/compiler/2024.1/lib -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o bsvars.so RcppExports.o bsvar.o bsvarTOOLs.o bsvar_msh.o bsvar_sv.o forecast.o msh.o normalisation.o sample.o sample_ABhyper.o sv.o utils.o verify.o -L/data/gannet/ripley/intel/oneapi/mkl/2023.2.0/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lifport -lifcoremt -limf -lsvml -lm -lipgo -lirc -lpthread -lirc_s -ldl make[2]: Leaving directory '/data/gannet/ripley/R/packages/tests-Intel/bsvars/src' make[2]: Entering directory '/data/gannet/ripley/R/packages/tests-Intel/bsvars/src' make[2]: Leaving directory '/data/gannet/ripley/R/packages/tests-Intel/bsvars/src' installing to /data/gannet/ripley/R/packages/tests-Intel/bsvars.Rcheck/00LOCK-bsvars/00new/bsvars/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (bsvars)