Install log for 'Colossus'

* installing *source* package ‘Colossus’ ...
** this is package ‘Colossus’ version ‘1.3.0’
** package ‘Colossus’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/testthat/include' -I/opt/R/arm64/include     -fPIC  -falign-functions=64 -Wall -g -O2   -c Calc_Repeated.cpp -o Calc_Repeated.o
Calc_Repeated.cpp:3365:9: warning: variable 'reqrdcond' set but not used [-Wunused-but-set-variable]
    int reqrdcond = 1;
        ^
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/testthat/include' -I/opt/R/arm64/include     -fPIC  -falign-functions=64 -Wall -g -O2   -c Main_Functions.cpp -o Main_Functions.o
Main_Functions.cpp:1546:23: warning: unused variable 'Lldd_mat' [-Wunused-variable]
        Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                      ^
Main_Functions.cpp:1547:23: warning: unused variable 'Lld_vec' [-Wunused-variable]
        Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                      ^
Main_Functions.cpp:1671:23: warning: unused variable 'Lldd_mat' [-Wunused-variable]
        Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                      ^
Main_Functions.cpp:1672:23: warning: unused variable 'Lld_vec' [-Wunused-variable]
        Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                      ^
Main_Functions.cpp:1274:15: warning: unused variable 'mat_row' [-Wunused-variable]
    const int mat_row = df0.rows();
              ^
Main_Functions.cpp:2215:23: warning: unused variable 'Lldd_mat' [-Wunused-variable]
        Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                      ^
Main_Functions.cpp:2216:23: warning: unused variable 'Lld_vec' [-Wunused-variable]
        Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                      ^
Main_Functions.cpp:2550:23: warning: unused variable 'Lldd_mat' [-Wunused-variable]
        Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                      ^
Main_Functions.cpp:2551:23: warning: unused variable 'Lld_vec' [-Wunused-variable]
        Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                      ^
Main_Functions.cpp:2839:23: warning: unused variable 'Lldd_mat' [-Wunused-variable]
        Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                      ^
Main_Functions.cpp:2840:23: warning: unused variable 'Lld_vec' [-Wunused-variable]
        Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                      ^
Main_Functions.cpp:2960:23: warning: unused variable 'Lld_vec' [-Wunused-variable]
        Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                      ^
Main_Functions.cpp:2959:23: warning: unused variable 'Lldd_mat' [-Wunused-variable]
        Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                      ^
Main_Functions.cpp:3474:23: warning: unused variable 'Lldd_mat' [-Wunused-variable]
        Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                      ^
Main_Functions.cpp:3475:23: warning: unused variable 'Lld_vec' [-Wunused-variable]
        Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                      ^
Main_Functions.cpp:3800:23: warning: unused variable 'Lldd_mat' [-Wunused-variable]
        Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                      ^
Main_Functions.cpp:3801:23: warning: unused variable 'Lld_vec' [-Wunused-variable]
        Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                      ^
Main_Functions.cpp:3833:10: warning: unused variable 'ending' [-Wunused-variable]
    auto ending = time_point_cast<microseconds>(end_point).time_since_epoch().count();  // the time duration is tracked
         ^
Main_Functions.cpp:3831:10: warning: unused variable 'start' [-Wunused-variable]
    auto start = time_point_cast<microseconds>(start_point).time_since_epoch().count();
         ^
Main_Functions.cpp:5172:19: warning: unused variable 'Lldd_mat' [-Wunused-variable]
    Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                  ^
Main_Functions.cpp:5173:19: warning: unused variable 'Lld_vec' [-Wunused-variable]
    Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                  ^
Main_Functions.cpp:5675:19: warning: unused variable 'Lldd_mat' [-Wunused-variable]
    Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                  ^
Main_Functions.cpp:5676:19: warning: unused variable 'Lld_vec' [-Wunused-variable]
    Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                  ^
Main_Functions.cpp:6184:12: warning: unused variable 'Lstar' [-Wunused-variable]
    double Lstar = 0.0;
           ^
24 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/testthat/include' -I/opt/R/arm64/include     -fPIC  -falign-functions=64 -Wall -g -O2   -c Omnibus_Pieces.cpp -o Omnibus_Pieces.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/testthat/include' -I/opt/R/arm64/include     -fPIC  -falign-functions=64 -Wall -g -O2   -c Plot_Extensions.cpp -o Plot_Extensions.o
Plot_Extensions.cpp:191:16: warning: variable 'Rds1' set but not used [-Wunused-but-set-variable]
        double Rds1 = 0;  // total weighted risk derivative squared
               ^
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/testthat/include' -I/opt/R/arm64/include     -fPIC  -falign-functions=64 -Wall -g -O2   -c R_Interface.cpp -o R_Interface.o
R_Interface.cpp:475:10: warning: unused variable 'manual' [-Wunused-variable]
    bool manual   = model_control["manual"];
         ^
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/testthat/include' -I/opt/R/arm64/include     -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/testthat/include' -I/opt/R/arm64/include     -fPIC  -falign-functions=64 -Wall -g -O2   -c Step_Calc.cpp -o Step_Calc.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RcppEigen/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/testthat/include' -I/opt/R/arm64/include     -fPIC  -falign-functions=64 -Wall -g -O2   -c Subterms_Risk.cpp -o Subterms_Risk.o
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o Colossus.so Calc_Repeated.o Main_Functions.o Omnibus_Pieces.o Plot_Extensions.o R_Interface.o RcppExports.o Step_Calc.o Subterms_Risk.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0 -L/opt/gfortran/lib -lemutls_w -lheapt_w -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R
ld: warning: could not create compact unwind for ___emutls_get_address: does not use standard frame
ld: warning: could not create compact unwind for _allocate_tramp_ctrl: does not use standard frame
ld: warning: could not create compact unwind for ___gcc_nested_func_ptr_created: does not use standard frame
ld: warning: could not create compact unwind for ___gcc_nested_func_ptr_deleted: does not use standard frame
installing to /Volumes/Builds/packages/big-sur-arm64/results/4.5/Colossus.Rcheck/00LOCK-Colossus/00new/Colossus/libs
** generating debug symbols (dSYM)
** R
** 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 (Colossus)