* installing *source* package ‘stpm’ ... ** package ‘stpm’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘clang version 18.1.4’ using C++ compiler: ‘clang version 18.1.4’ make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/stpm/src' /usr/local/clang18/bin/clang++ -std=gnu++17 -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c devlik.cpp -o devlik.o /usr/local/clang18/bin/clang++ -std=gnu++17 -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c devlik_g.cpp -o devlik_g.o devlik.cpp:459:6: warning: unused variable 't_n' [-Wunused-variable] 459 | int t_n = m0_v.n_elem; | ^~~ devlik_g.cpp:407:6: warning: unused variable 't_n' [-Wunused-variable] 407 | int t_n = m0_v.n_elem; | ^~~ 1 warning generated. 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c devlik_g_2.cpp -o devlik_g_2.o devlik_g_2.cpp:362:6: warning: unused variable 't_n' [-Wunused-variable] 362 | int t_n = m0_v.n_elem; | ^~~ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c hes_spm_g.cpp -o hes_spm_g.o /usr/local/clang18/bin/clang++ -std=gnu++17 -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c loglik.cpp -o loglik.o /usr/local/clang18/bin/clang++ -std=gnu++17 -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c loglik_g.cpp -o loglik_g.o loglik_g.cpp:34:9: warning: unused variable 'c1' [-Wunused-variable] 34 | double c1 = (u / (r0 - rs) + 2 * q)*exp(-1 * u*t0); | ^~ loglik_g.cpp:55:9: warning: unused variable 'c1' [-Wunused-variable] 55 | double c1 = (u / (r0 - rs) + 2 * q)*exp((-1) * u*t0); | ^~ loglik_g.cpp:56:9: warning: unused variable 'w_u' [-Wunused-variable] 56 | double w_u = (-1)*q*f + q*a*(f - f1) / sqrt(pow(a, 2) + 2 * q*pow(b, 2)); | ^~~ loglik_g.cpp:77:9: warning: unused variable 'w_u' [-Wunused-variable] 77 | double w_u = (-1)*q*f + q*a*(f - f1) / sqrt(pow(a, 2) + 2 * q*pow(b, 2)); | ^~~ loglik_g.cpp:140:6: warning: unused variable 't_n' [-Wunused-variable] 140 | int t_n = m0_v.n_elem; | ^~~ loglik.cpp:26:9: warning: unused variable 'c1' [-Wunused-variable] 26 | double c1 = (u / (r0 - rs) + 2 * q)*exp(-1 * u*t0); | ^~ loglik.cpp:42:9: warning: unused variable 'c1' [-Wunused-variable] 42 | double c1 = (u / (r0 - rs) + 2 * q)*exp((-1) * u*t0); | ^~ loglik.cpp:43:9: warning: unused variable 'w_u' [-Wunused-variable] 43 | double w_u = (-1)*q*f + q*a*(f - f1) / sqrt(pow(a, 2) + 2 * q*pow(b, 2)); | ^~~ loglik.cpp:59:9: warning: unused variable 'w_u' [-Wunused-variable] 59 | double w_u = (-1)*q*f + q*a*(f - f1) / sqrt(pow(a, 2) + 2 * q*pow(b, 2)); | ^~~ loglik.cpp:114:6: warning: unused variable 't_n' [-Wunused-variable] 114 | int t_n = m0_v.n_elem; | ^~~ 5 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c loglik_g_2.cpp -o loglik_g_2.o 5 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c simdataND.cpp -o simdataND.o /usr/local/clang18/bin/clang++ -std=gnu++17 -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c spm_1D.cpp -o spm_1D.o /usr/local/clang18/bin/clang++ -std=gnu++17 -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c spm_discrete.cpp -o spm_discrete.o loglik_g_2.cpp:35:9: warning: unused variable 'c1' [-Wunused-variable] 35 | double c1 = (u / (r0 - rs) + 2 * q)*exp(-1 * u*t0); | ^~ loglik_g_2.cpp:58:9: warning: unused variable 'c1' [-Wunused-variable] 58 | double c1 = (u / (r0 - rs) + 2 * q)*exp((-1) * u*t0); | ^~ loglik_g_2.cpp:59:9: warning: unused variable 'w_u' [-Wunused-variable] 59 | double w_u = (-1)*q*f + q*a*(f - f1) / sqrt(pow(a, 2) + 2 * q*pow(b, 2)); | ^~~ loglik_g_2.cpp:82:9: warning: unused variable 'w_u' [-Wunused-variable] 82 | double w_u = (-1)*q*f + q*a*(f - f1) / sqrt(pow(a, 2) + 2 * q*pow(b, 2)); | ^~~ loglik_g_2.cpp:147:6: warning: unused variable 't_n' [-Wunused-variable] 147 | int t_n = m0_v.n_elem; | ^~~ spm_1D.cpp:23:15: warning: variable 'hf1H' set but not used [-Wunused-but-set-variable] 23 | double hfH, hf1H, mu0Ht, mu; | ^ spm_1D.cpp:78:9: warning: variable 'res' set but not used [-Wunused-but-set-variable] 78 | int res = func1(k1ar, t,out, fH, f1H, aH, bH, QH, thetaH); | ^ 2 warnings generated. 5 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c spm_integral_MD.cpp -o spm_integral_MD.o /usr/local/clang18/bin/clang++ -std=gnu++17 -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c spm_integral_md_linear.cpp -o spm_integral_md_linear.o /usr/local/clang18/bin/clang -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/RcppArmadillo/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c stpm_init.c -o stpm_init.o spm_integral_MD.cpp:1050:17: warning: variable 'L1Y' set but not used [-Wunused-but-set-variable] 1050 | long double L1Y, L1Q, L0Y, L0Q; | ^ 1 warning generated. /usr/local/clang18/bin/clang++ -std=gnu++17 -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 stpm.so devlik.o devlik_g.o devlik_g_2.o hes_spm_g.o loglik.o loglik_g.o loglik_g_2.o simdataND.o spm_1D.o spm_discrete.o spm_integral_MD.o spm_integral_md_linear.o stpm_init.o -fopenmp -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lFortran_main -lFortranRuntime -lFortranDecimal -lm make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/stpm/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/stpm/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/stpm/src' installing to /data/gannet/ripley/R/packages/tests-clang/stpm.Rcheck/00LOCK-stpm/00new/stpm/libs ** R ** data ** 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 (stpm)