* installing *source* package ‘surveyvoi’ ... ** package ‘surveyvoi’ successfully unpacked and MD5 sums checked ** using staged installation checking if R found... yes configure: R version: 4.5.0 checking for pkg-config... yes configure: Package PKG_CPPFLAGS: -I/usr/local/include configure: Package PKG_LIBS: -lgmpxx -lgmp -lmpfr -lgmp checking if gmp compiles... yes checking if mpfr compiles... yes configure: configuration successful! configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: ‘gcc-13 (GCC) 13.2.0’ using C++ compiler: ‘g++-13 (GCC) 13.2.0’ make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/surveyvoi/src' rm -f surveyvoi.so RcppExports.o functions.o init.o rcpp_approx_expected_value_of_decision_given_survey_scheme.o rcpp_expected_value_of_action.o rcpp_expected_value_of_decision_given_current_info.o rcpp_expected_value_of_decision_given_survey_scheme.o rcpp_feasible_actions_ilp_matrix.o rcpp_heuristic_prioritization.o rcpp_model_performance.o rcpp_pmedian_constraint_matrix.o rcpp_probability.o rcpp_sample_states.o rcpp_states.o rcpp_update_posterior_probability_matrix.o g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c RcppExports.cpp -o RcppExports.o g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c functions.cpp -o functions.o gcc-13 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c init.c -o init.o g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c rcpp_approx_expected_value_of_decision_given_survey_scheme.cpp -o rcpp_approx_expected_value_of_decision_given_survey_scheme.o g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c rcpp_expected_value_of_action.cpp -o rcpp_expected_value_of_action.o g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c rcpp_expected_value_of_decision_given_current_info.cpp -o rcpp_expected_value_of_decision_given_current_info.o g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c rcpp_expected_value_of_decision_given_survey_scheme.cpp -o rcpp_expected_value_of_decision_given_survey_scheme.o g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c rcpp_feasible_actions_ilp_matrix.cpp -o rcpp_feasible_actions_ilp_matrix.o g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c rcpp_heuristic_prioritization.cpp -o rcpp_heuristic_prioritization.o g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c rcpp_model_performance.cpp -o rcpp_model_performance.o rcpp_expected_value_of_decision_given_survey_scheme.cpp: In function 'double rcpp_expected_value_of_decision_given_survey_scheme(Eigen::MatrixXd, std::vector, Eigen::VectorXd, Eigen::VectorXd, std::vector, Eigen::VectorXd, Eigen::VectorXd, Eigen::VectorXd, Eigen::VectorXd, Eigen::VectorXi, double)': rcpp_expected_value_of_decision_given_survey_scheme.cpp:37:21: warning: unused variable 'n_f_outcomes' [-Wunused-variable] 37 | const std::size_t n_f_outcomes = n_states(n_pu_surveyed_in_scheme) + 1; | ^~~~~~~~~~~~ g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c rcpp_pmedian_constraint_matrix.cpp -o rcpp_pmedian_constraint_matrix.o g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c rcpp_probability.cpp -o rcpp_probability.o g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c rcpp_sample_states.cpp -o rcpp_sample_states.o rcpp_heuristic_prioritization.cpp: In function 'void greedy_heuristic_prioritization(Eigen::MatrixXd&, Eigen::VectorXd&, Eigen::VectorXd&, Eigen::VectorXd&, Eigen::VectorXi&, double, std::vector&)': rcpp_heuristic_prioritization.cpp:10:21: warning: unused variable 'n_f' [-Wunused-variable] 10 | const std::size_t n_f = rij.rows(); | ^~~ rcpp_heuristic_prioritization.cpp:33:10: warning: unused variable 'curr_cost' [-Wunused-variable] 33 | double curr_cost; | ^~~~~~~~~ g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c rcpp_states.cpp -o rcpp_states.o g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I/usr/local/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/PoissonBinomial/include' -I'/data/gannet/ripley/R/test-dev/nloptr/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c rcpp_update_posterior_probability_matrix.cpp -o rcpp_update_posterior_probability_matrix.o In file included from /usr/local/gcc13/include/c++/13.2.0/vector:67, from /data/gannet/ripley/R/test-dev/Rcpp/include/RcppCommon.h:60, from /data/gannet/ripley/R/test-dev/Rcpp/include/Rcpp.h:27, from package.h:11, from rcpp_heuristic_prioritization.h:5, from rcpp_heuristic_prioritization.cpp:1: In member function 'std::vector::reference std::vector::operator[](size_type) [with _Alloc = std::allocator]', inlined from 'void greedy_heuristic_prioritization(Eigen::MatrixXd&, Eigen::VectorXd&, Eigen::VectorXd&, Eigen::VectorXd&, Eigen::VectorXi&, double, std::vector&)' at rcpp_heuristic_prioritization.cpp:107:22: /usr/local/gcc13/include/c++/13.2.0/bits/stl_bvector.h:1050:23: warning: 'curr_idx' may be used uninitialized [-Wmaybe-uninitialized] 1050 | { return begin()[__n]; } | ~~~~~~~^ rcpp_heuristic_prioritization.cpp: In function 'void greedy_heuristic_prioritization(Eigen::MatrixXd&, Eigen::VectorXd&, Eigen::VectorXd&, Eigen::VectorXd&, Eigen::VectorXi&, double, std::vector&)': rcpp_heuristic_prioritization.cpp:35:15: note: 'curr_idx' was declared here 35 | std::size_t curr_idx; | ^~~~~~~~ rcpp_pmedian_constraint_matrix.cpp: In function 'Rcpp::List rcpp_pmedian_constraint_matrix(Eigen::MatrixXd, Rcpp::NumericVector)': rcpp_pmedian_constraint_matrix.cpp:8:15: warning: unused variable 'n_vars' [-Wunused-variable] 8 | std::size_t n_vars = n + (n * n); | ^~~~~~ rcpp_sample_states.cpp: In function 'void sample_n_uniform_states_without_replacement(std::size_t, Eigen::MatrixXd&, std::vector<__gmp_expr<__mpz_struct [1], __mpz_struct [1]> >&)': rcpp_sample_states.cpp:62:21: warning: unused variable 'n_v' [-Wunused-variable] 62 | const std::size_t n_v = pij.size(); | ^~~ rcpp_sample_states.cpp: In function 'void sample_n_weighted_states_without_replacement(std::size_t, Eigen::MatrixXd&, std::vector<__gmp_expr<__mpz_struct [1], __mpz_struct [1]> >&)': rcpp_sample_states.cpp:115:21: warning: unused variable 'n_v' [-Wunused-variable] 115 | const std::size_t n_v = pij.size(); | ^~~ g++-13 -std=gnu++17 -shared -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -o surveyvoi.so RcppExports.o functions.o init.o rcpp_approx_expected_value_of_decision_given_survey_scheme.o rcpp_expected_value_of_action.o rcpp_expected_value_of_decision_given_current_info.o rcpp_expected_value_of_decision_given_survey_scheme.o rcpp_feasible_actions_ilp_matrix.o rcpp_heuristic_prioritization.o rcpp_model_performance.o rcpp_pmedian_constraint_matrix.o rcpp_probability.o rcpp_sample_states.o rcpp_states.o rcpp_update_posterior_probability_matrix.o -lgmpxx -lgmp -lmpfr -lgmp make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/surveyvoi/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/surveyvoi/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/surveyvoi/src' installing to /data/gannet/ripley/R/packages/tests-devel/surveyvoi.Rcheck/00LOCK-surveyvoi/00new/surveyvoi/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (surveyvoi)