* installing *source* package ‘rstpm2’ ...
** package ‘rstpm2’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -DBOOST_NO_AUTO_PTR -I../inst/include -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c aft.cpp -o aft.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -DBOOST_NO_AUTO_PTR -I../inst/include -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c aft_integrated.cpp -o aft_integrated.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -DBOOST_NO_AUTO_PTR -I../inst/include -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c aft_mixture.cpp -o aft_mixture.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -DBOOST_NO_AUTO_PTR -I../inst/include -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c c_optim.cpp -o c_optim.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -DBOOST_NO_AUTO_PTR -I../inst/include -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c cox_ph.cpp -o cox_ph.o
gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c gaussq2.f -o gaussq2.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -DBOOST_NO_AUTO_PTR -I../inst/include -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c gsm.cpp -o gsm.o
gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c laplace.f90 -o laplace.o
laplace.f90:10:31:
&L31, L32, L33, L34, L35, L36, L37, L38, L39, L40
1
Warning: Unused variable ‘l35’ declared at (1) [-Wunused-variable]
laplace.f90:10:36:
&L31, L32, L33, L34, L35, L36, L37, L38, L39, L40
1
Warning: Unused variable ‘l36’ declared at (1) [-Wunused-variable]
laplace.f90:10:41:
&L31, L32, L33, L34, L35, L36, L37, L38, L39, L40
1
Warning: Unused variable ‘l37’ declared at (1) [-Wunused-variable]
laplace.f90:10:46:
&L31, L32, L33, L34, L35, L36, L37, L38, L39, L40
1
Warning: Unused variable ‘l38’ declared at (1) [-Wunused-variable]
laplace.f90:10:51:
&L31, L32, L33, L34, L35, L36, L37, L38, L39, L40
1
Warning: Unused variable ‘l39’ declared at (1) [-Wunused-variable]
laplace.f90:10:56:
&L31, L32, L33, L34, L35, L36, L37, L38, L39, L40
1
Warning: Unused variable ‘l40’ declared at (1) [-Wunused-variable]
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -DBOOST_NO_AUTO_PTR -I../inst/include -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c multistate.cpp -o multistate.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -DBOOST_NO_AUTO_PTR -I../inst/include -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c package_init.c -o package_init.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -DBOOST_NO_AUTO_PTR -I../inst/include -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c pluginEstimate2.cpp -o pluginEstimate2.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -DBOOST_NO_AUTO_PTR -I../inst/include -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c splines.cpp -o splines.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -DBOOST_NO_AUTO_PTR -I../inst/include -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c test-nmmin.cpp -o test-nmmin.o
test-nmmin.cpp:481:19: warning: 'rstpm2::NelderMead2::calc_hessian' hides overloaded virtual function [-Woverloaded-virtual]
NumericMatrix calc_hessian(optimfn fn, void * ex, int debug = 0) {
^
../inst/include/c_optim.h:62:33: note: hidden overloaded virtual function 'rstpm2::NelderMead::calc_hessian' declared here: different number of parameters (2 vs 3)
virtual Rcpp::NumericMatrix calc_hessian(optimfn fn, void * ex);
^
1 warning generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -DBOOST_NO_AUTO_PTR -I../inst/include -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c vuniroot.cpp -o vuniroot.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o rstpm2.so aft.o aft_integrated.o aft_mixture.o c_optim.o cox_ph.o gaussq2.o gsm.o laplace.o multistate.o package_init.o pluginEstimate2.o splines.o test-nmmin.o vuniroot.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Volumes/Builds/packages/high-sierra-x86_64/results/4.2/rstpm2.Rcheck/00LOCK-rstpm2/00new/rstpm2/libs
** generating debug symbols (dSYM)
** R
** data
*** moving datasets to lazyload DB
** 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 (rstpm2)