Install log for 'Colossus'

* installing *source* package ‘Colossus’ ...
** 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  -DR_NO_REMAP -c Calc_Repeated.cpp -o Calc_Repeated.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  -DR_NO_REMAP -c Main_Functions.cpp -o Main_Functions.o
Main_Functions.cpp:1960:23: warning: unused variable 'Lldd_mat' [-Wunused-variable]
        Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                      ^
Main_Functions.cpp:1961:23: warning: unused variable 'Lld_vec' [-Wunused-variable]
        Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                      ^
Main_Functions.cpp:2129:23: warning: unused variable 'Lldd_mat' [-Wunused-variable]
        Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                      ^
Main_Functions.cpp:2130:23: warning: unused variable 'Lld_vec' [-Wunused-variable]
        Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                      ^
Main_Functions.cpp:2840:24: warning: unused variable 'Lld_vec' [-Wunused-variable]
         Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                       ^
Main_Functions.cpp:2839:24: warning: unused variable 'Lldd_mat' [-Wunused-variable]
         Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                       ^
Main_Functions.cpp:3283:24: warning: unused variable 'Lld_vec' [-Wunused-variable]
         Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                       ^
Main_Functions.cpp:3282:24: warning: unused variable 'Lldd_mat' [-Wunused-variable]
         Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                       ^
Main_Functions.cpp:2463:9: warning: variable 'guess_abs_best' set but not used [-Wunused-but-set-variable]
    int guess_abs_best = - 1;
        ^
Main_Functions.cpp:2454:10: warning: variable 'convgd' set but not used [-Wunused-but-set-variable]
    bool convgd = FALSE;
         ^
Main_Functions.cpp:3648:23: warning: unused variable 'Lldd_mat' [-Wunused-variable]
        Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                      ^
Main_Functions.cpp:3649:23: warning: unused variable 'Lld_vec' [-Wunused-variable]
        Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                      ^
Main_Functions.cpp:3813:23: warning: unused variable 'Lld_vec' [-Wunused-variable]
        Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                      ^
Main_Functions.cpp:3812:23: warning: unused variable 'Lldd_mat' [-Wunused-variable]
        Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                      ^
Main_Functions.cpp:4491:24: warning: unused variable 'Lldd_mat' [-Wunused-variable]
         Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                       ^
Main_Functions.cpp:4492:24: warning: unused variable 'Lld_vec' [-Wunused-variable]
         Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                       ^
Main_Functions.cpp:4919:24: warning: unused variable 'Lld_vec' [-Wunused-variable]
         Map<VectorXd> Lld_vec(as<Map<VectorXd> >(Lld_vecc));
                       ^
Main_Functions.cpp:4918:24: warning: unused variable 'Lldd_mat' [-Wunused-variable]
         Map<MatrixXd> Lldd_mat(as<Map<MatrixXd> >(Lldd_vec));
                       ^
Main_Functions.cpp:4121:9: warning: variable 'guess_abs_best' set but not used [-Wunused-but-set-variable]
    int guess_abs_best = - 1;
        ^
Main_Functions.cpp:4112:10: warning: variable 'convgd' set but not used [-Wunused-but-set-variable]
    bool convgd = FALSE;
         ^
Main_Functions.cpp:5118:10: warning: variable 'convgd' set but not used [-Wunused-but-set-variable]
    bool convgd = FALSE;
         ^
Main_Functions.cpp:5135:9: warning: variable 'guess_abs_best' set but not used [-Wunused-but-set-variable]
    int guess_abs_best = - 1;
        ^
22 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  -DR_NO_REMAP -c Omnibus_Pieces.cpp -o Omnibus_Pieces.o
Omnibus_Pieces.cpp:138:9: warning: unused variable 'reqrdnum' [-Wunused-variable]
    int reqrdnum = totalnum - sum(KeepConstant);
        ^
Omnibus_Pieces.cpp:577:9: warning: unused variable 'reqrdnum' [-Wunused-variable]
    int reqrdnum = totalnum - sum(KeepConstant);
        ^
2 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  -DR_NO_REMAP -c Plot_Extensions.cpp -o Plot_Extensions.o
Plot_Extensions.cpp:194:16: 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  -DR_NO_REMAP -c R_Interface.cpp -o R_Interface.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  -DR_NO_REMAP -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  -DR_NO_REMAP -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  -DR_NO_REMAP -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-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: could not create compact unwind for ___emutls_get_address: registers 23 and 24 not saved contiguously in 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)