* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’ * installing *source* package ‘PKPDsim’ ... ** package ‘PKPDsim’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-1) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpsjuizw/R.INSTALLf07df6a75124f/PKPDsim/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pk_1cmt_iv_bolus.cpp -o pk_1cmt_iv_bolus.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pk_1cmt_iv_bolus_covariates.cpp -o pk_1cmt_iv_bolus_covariates.o pk_1cmt_iv_bolus_covariates.cpp: In function ‘Rcpp::DataFrame pk_1cmt_iv_bolus_covariates(Rcpp::DataFrame, Rcpp::List, Rcpp::StringVector, Rcpp::Function)’: pk_1cmt_iv_bolus_covariates.cpp:8:10: warning: unused variable ‘CLi’ [-Wunused-variable] 8 | double CLi, Vi, tmp; | ^~~ pk_1cmt_iv_bolus_covariates.cpp:8:15: warning: unused variable ‘Vi’ [-Wunused-variable] 8 | double CLi, Vi, tmp; | ^~ pk_1cmt_iv_bolus_covariates.cpp:8:19: warning: unused variable ‘tmp’ [-Wunused-variable] 8 | double CLi, Vi, tmp; | ^~~ pk_1cmt_iv_bolus_covariates.cpp:12:10: warning: unused variable ‘CL’ [-Wunused-variable] 12 | double CL = parameters["CL"]; | ^~ pk_1cmt_iv_bolus_covariates.cpp:13:10: warning: unused variable ‘V’ [-Wunused-variable] 13 | double V = parameters["V"]; | ^ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pk_1cmt_iv_infusion.cpp -o pk_1cmt_iv_infusion.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pk_1cmt_oral.cpp -o pk_1cmt_oral.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pk_2cmt_iv_bolus.cpp -o pk_2cmt_iv_bolus.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pk_2cmt_iv_infusion.cpp -o pk_2cmt_iv_infusion.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pk_2cmt_oral.cpp -o pk_2cmt_oral.o pk_2cmt_oral.cpp: In function ‘Rcpp::DataFrame pk_2cmt_oral(Rcpp::DataFrame)’: pk_2cmt_oral.cpp:8:14: warning: unused variable ‘k10’ [-Wunused-variable] 8 | double ka, k10, k20, k30, k23, k32, E1, E2, E3, lambda1, lambda2, t, A1last, A2last, A3last, A2term1, A2term2, A3term1, A3term2; | ^~~ pk_2cmt_oral.cpp:8:39: warning: unused variable ‘E1’ [-Wunused-variable] 8 | double ka, k10, k20, k30, k23, k32, E1, E2, E3, lambda1, lambda2, t, A1last, A2last, A3last, A2term1, A2term2, A3term1, A3term2; | ^~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pk_3cmt_iv_bolus.cpp -o pk_3cmt_iv_bolus.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pk_3cmt_iv_infusion.cpp -o pk_3cmt_iv_infusion.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/BH/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pk_3cmt_oral.cpp -o pk_3cmt_oral.o pk_3cmt_oral.cpp: In function ‘Rcpp::DataFrame pk_3cmt_oral(Rcpp::DataFrame)’: pk_3cmt_oral.cpp:8:14: warning: unused variable ‘k10’ [-Wunused-variable] 8 | double ka, k10, k20, k23, k32, k24, k42, k30, k40, E1, E2, E3, E4; | ^~~ pk_3cmt_oral.cpp:8:54: warning: unused variable ‘E1’ [-Wunused-variable] 8 | double ka, k10, k20, k23, k32, k24, k42, k30, k40, E1, E2, E3, E4; | ^~ pk_3cmt_oral.cpp:10:42: warning: unused variable ‘A1term1’ [-Wunused-variable] 10 | double A1last, A2last, A3last, A4last, A1term1, A1term2, A2term1, A2term2, A2term3, A3term1, A3term2, A3term3, A4term1, A4term2, A4term3; | ^~~~~~~ pk_3cmt_oral.cpp:10:51: warning: unused variable ‘A1term2’ [-Wunused-variable] 10 | double A1last, A2last, A3last, A4last, A1term1, A1term2, A2term1, A2term2, A2term3, A3term1, A3term2, A3term3, A4term1, A4term2, A4term3; | ^~~~~~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o PKPDsim.so RcppExports.o pk_1cmt_iv_bolus.o pk_1cmt_iv_bolus_covariates.o pk_1cmt_iv_infusion.o pk_1cmt_oral.o pk_2cmt_iv_bolus.o pk_2cmt_iv_infusion.o pk_2cmt_oral.o pk_3cmt_iv_bolus.o pk_3cmt_iv_infusion.o pk_3cmt_oral.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpsjuizw/R.INSTALLf07df6a75124f/PKPDsim/src' make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpsjuizw/R.INSTALLf07df6a75124f/PKPDsim/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpsjuizw/R.INSTALLf07df6a75124f/PKPDsim/src' installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-PKPDsim/00new/PKPDsim/libs ** R ** data *** moving datasets to lazyload DB ** exec ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘PKPDsim’ finding HTML links ... done OneCompIVbolus html OneCompIVinfusion html OneCompOral html PKPDsim-package html ThreeCompIVbolus html ThreeCompIVinfusion html ThreeCompIVinfusionMetab html ThreeCompOral html ThreeCompOralMetab html TwoCompIVbolus html TwoCompIVinfusion html TwoCompOral html add_quotes html add_ruv html add_ruv_to_quantile html adherence_binomial html adherence_markov html advan html advan_create_data html advan_parse_output html advan_process_infusion_doses html analytical_eqn_wrapper html apply_lagtime html bioavailability_to_R_code html calc_dydP html calc_ss_analytic html calculate_parameters html check_iov_specification html check_mixture_model html check_obs_input html compile_sim_cpp html covariate_last_obs_only html covariates_table_to_list html create_event_table html create_obs_data html cv_to_omega html define_tdm_init_model html detect_ode_syntax html f_cov html get_fixed_parameters html get_ode_model_size html get_parameters_from_code html get_t_obs_from_regimen html get_var_y html ifelse0 html is_newer_package html is_positive_definite html join_cov_and_par html join_regimen html lower_triangle_mat_size html merge_regimen html model_from_api html model_library html mvrnorm2 html na_locf html new_adherence html new_covariate html new_covariate_model html new_ode_model html new_regimen html nlmixr_parse_parameters html nm_to_regimen html now_utc html parse_obs_types html pkdata html pkpdsim_to_nlmixr html pop_regimen html print.PKPDsim html print.covariate html print.regimen html print_list html read_model_json html regimen_to_nm html reparametrize html search_replace_in_file html shift_regimen html shift_state_indices html sim html sim_core html sim_ode html sim_ode_shiny html table_to_list html test_model html test_pointer html translate_ode html triangle_to_full html vector_to_R_code html *** 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 (PKPDsim)