* installing *source* package ‘colvR’ ...
** this is package ‘colvR’ version ‘0.2.1’
** package ‘colvR’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
specified C++17
using C++ compiler: ‘Apple clang version 17.0.0 (clang-1700.3.19.1)’
using C++17
using SDK: ‘MacOSX14.5.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/nloptr/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 -DSTRICT_R_HEADERS -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/nloptr/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c nlopt_wrapper.cpp -o nlopt_wrapper.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/nloptr/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c optim_rank_ZIP.cpp -o optim_rank_ZIP.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/nloptr/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c optim_rank_ZIP_M.cpp -o optim_rank_ZIP_M.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/nloptr/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c optim_rank_ZIP_VE.cpp -o optim_rank_ZIP_VE.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/nloptr/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c optim_rank_ZIP_alternate.cpp -o optim_rank_ZIP_alternate.o
nlopt_wrapper.cpp:148:24: warning: lambda capture 'check' is not used [-Wunused-lambda-capture]
148 | auto f_and_grad = [check](const double * x, double * grad) -> double {
| ^~~~~
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/nloptr/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c optim_rank_ZIP_q0.cpp -o optim_rank_ZIP_q0.o
In file included from optim_rank_ZIP_alternate.cpp:15:
./Elbo_gradBB.h:107:9: warning: unused variable 'n' [-Wunused-variable]
107 | int n = Y.n_rows;
| ^
./Elbo_gradBB.h:108:9: warning: unused variable 'p' [-Wunused-variable]
108 | int p = Y.n_cols;
| ^
./Elbo_gradBB.h:109:9: warning: unused variable 'q' [-Wunused-variable]
109 | int q = M.n_cols;
| ^
In file included from optim_rank_ZIP_VE.cpp:15:
./Elbo_gradBB.h:107:9: warning: unused variable 'n' [-Wunused-variable]
107 | int n = Y.n_rows;
| ^
./Elbo_gradBB.h:108:9: warning: unused variable 'p' [-Wunused-variable]
108 | int p = Y.n_cols;
| ^
./Elbo_gradBB.h:109:9: warning: unused variable 'q' [-Wunused-variable]
109 | int q = M.n_cols;
| ^
In file included from optim_rank_ZIP_M.cpp:15:
./Elbo_gradBB.h:107:9: warning: unused variable 'n' [-Wunused-variable]
107 | int n = Y.n_rows;
| ^
./Elbo_gradBB.h:108:9: warning: unused variable 'p' [-Wunused-variable]
108 | int p = Y.n_cols;
| ^
./Elbo_gradBB.h:109:9: warning: unused variable 'q' [-Wunused-variable]
109 | int q = M.n_cols;
| ^
In file included from optim_rank_ZIP.cpp:15:
./Elbo_gradBB.h:107:9: warning: unused variable 'n' [-Wunused-variable]
107 | int n = Y.n_rows;
| ^
./Elbo_gradBB.h:108:9: warning: unused variable 'p' [-Wunused-variable]
108 | int p = Y.n_cols;
| ^
./Elbo_gradBB.h:109:9: warning: unused variable 'q' [-Wunused-variable]
109 | int q = M.n_cols;
| ^
optim_rank_ZIP_M.cpp:123:9: warning: unused variable 'd' [-Wunused-variable]
123 | int d = X.n_cols;
| ^
optim_rank_ZIP.cpp:224:9: warning: unused variable 'q' [-Wunused-variable]
224 | int q = M.n_cols;
| ^
optim_rank_ZIP.cpp:225:9: warning: unused variable 'd' [-Wunused-variable]
225 | int d = X.n_cols;
| ^
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/nloptr/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c optim_rank_cov.cpp -o optim_rank_cov.o
4 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/nloptr/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c optim_rank_cov_inter.cpp -o optim_rank_cov_inter.o
3 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/nloptr/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c optim_rank_zip_log.cpp -o optim_rank_zip_log.o
3 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/nloptr/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c packing.cpp -o packing.o
5 warnings generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DSTRICT_R_HEADERS -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/sonoma-arm64/Rlib/4.6/nloptr/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c utilsBB.cpp -o utilsBB.o
In file included from optim_rank_zip_log.cpp:15:
./Elbo_gradBB.h:107:9: warning: unused variable 'n' [-Wunused-variable]
107 | int n = Y.n_rows;
| ^
./Elbo_gradBB.h:108:9: warning: unused variable 'p' [-Wunused-variable]
108 | int p = Y.n_cols;
| ^
./Elbo_gradBB.h:109:9: warning: unused variable 'q' [-Wunused-variable]
109 | int q = M.n_cols;
| ^
utilsBB.cpp:132:7: warning: unused variable 'l' [-Wunused-variable]
132 | int l = vecY.size();
| ^
utilsBB.cpp:150:7: warning: unused variable 'n' [-Wunused-variable]
150 | int n = Y.n_rows;
| ^
utilsBB.cpp:151:7: warning: unused variable 'p' [-Wunused-variable]
151 | int p = Y.n_cols;
| ^
utilsBB.cpp:175:7: warning: unused variable 'n' [-Wunused-variable]
175 | int n = Y.n_rows;
| ^
utilsBB.cpp:176:7: warning: unused variable 'p' [-Wunused-variable]
176 | int p = Y.n_cols;
| ^
utilsBB.cpp:200:7: warning: unused variable 'n' [-Wunused-variable]
200 | int n = A.n_rows;
| ^
utilsBB.cpp:201:7: warning: unused variable 'p' [-Wunused-variable]
201 | int p = A.n_cols;
| ^
3 warnings generated.
7 warnings generated.
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 colvR.so RcppExports.o nlopt_wrapper.o optim_rank_ZIP.o optim_rank_ZIP_M.o optim_rank_ZIP_VE.o optim_rank_ZIP_alternate.o optim_rank_ZIP_q0.o optim_rank_cov.o optim_rank_cov_inter.o optim_rank_zip_log.o packing.o utilsBB.o -lnlopt -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
installing to /Volumes/Builds/packages/sonoma-arm64/results/4.6/colvR.Rcheck/00LOCK-colvR/00new/colvR/libs
** generating debug symbols (dSYM)
** R
** data
** 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 (colvR)