* installing *source* package ‘PKPDsim’ ...
** package ‘PKPDsim’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘clang version 18.1.4’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/PKPDsim/src'
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c RcppExports.cpp -o RcppExports.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c pk_1cmt_iv_bolus.cpp -o pk_1cmt_iv_bolus.o
pk_1cmt_iv_bolus.cpp:20:30: warning: unused variable 'it' [-Wunused-variable]
20 | std::vector<int>::iterator it;
| ^~
1 warning generated.
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c pk_1cmt_iv_bolus_covariates.cpp -o pk_1cmt_iv_bolus_covariates.o
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"];
| ^
pk_1cmt_iv_bolus_covariates.cpp:23:30: warning: unused variable 'it' [-Wunused-variable]
23 | std::vector<int>::iterator it;
| ^~
6 warnings generated.
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c pk_1cmt_iv_infusion.cpp -o pk_1cmt_iv_infusion.o
pk_1cmt_iv_infusion.cpp:20:30: warning: unused variable 'it' [-Wunused-variable]
20 | std::vector<int>::iterator it;
| ^~
1 warning generated.
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c pk_1cmt_oral.cpp -o pk_1cmt_oral.o
pk_1cmt_oral.cpp:25:30: warning: unused variable 'it' [-Wunused-variable]
25 | std::vector<int>::iterator it;
| ^~
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c pk_2cmt_iv_bolus.cpp -o pk_2cmt_iv_bolus.o
1 warning generated.
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c pk_2cmt_iv_infusion.cpp -o pk_2cmt_iv_infusion.o
pk_2cmt_iv_bolus.cpp:24:30: warning: unused variable 'it' [-Wunused-variable]
24 | std::vector<int>::iterator it;
| ^~
1 warning generated.
pk_2cmt_iv_infusion.cpp:25:30: warning: unused variable 'it' [-Wunused-variable]
25 | std::vector<int>::iterator it;
| ^~
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c pk_2cmt_oral.cpp -o pk_2cmt_oral.o
1 warning generated.
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c pk_3cmt_iv_bolus.cpp -o pk_3cmt_iv_bolus.o
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c pk_3cmt_iv_infusion.cpp -o pk_3cmt_iv_infusion.o
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;
| ^~
pk_2cmt_oral.cpp:29:30: warning: unused variable 'it' [-Wunused-variable]
29 | std::vector<int>::iterator it;
| ^~
pk_3cmt_iv_bolus.cpp:30:30: warning: unused variable 'it' [-Wunused-variable]
30 | std::vector<int>::iterator it;
| ^~
3 warnings generated.
1 warning generated.
pk_3cmt_iv_infusion.cpp:31:30: warning: unused variable 'it' [-Wunused-variable]
31 | std::vector<int>::iterator it;
| ^~
/usr/local/clang18/bin/clang++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -D_HAS_AUTO_PTR_ETC=0 -I'/data/gannet/ripley/R/test-clang/BH/include' -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c pk_3cmt_oral.cpp -o pk_3cmt_oral.o
1 warning generated.
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;
| ^~~~~~~
pk_3cmt_oral.cpp:35:30: warning: unused variable 'it' [-Wunused-variable]
35 | std::vector<int>::iterator it;
| ^~
5 warnings 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 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
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/PKPDsim/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/PKPDsim/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/PKPDsim/src'
installing to /data/gannet/ripley/R/packages/tests-clang/PKPDsim.Rcheck/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
*** 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)