* installing *source* package ‘simer’ ...
** package ‘simer’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/RcppProgress/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/BH/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/bigmemory/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/RcppProgress/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/BH/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/bigmemory/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c data_converter.cpp -o data_converter.o
In file included from data_converter.cpp:2:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/BH/include/boost/bind.hpp:36:1: warning: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior. [-W#pragma-messages]
BOOST_PRAGMA_MESSAGE(
^
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/BH/include/boost/config/pragma_message.hpp:24:34: note: expanded from macro 'BOOST_PRAGMA_MESSAGE'
# define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x)))
                                 ^
<scratch space>:29:2: note: expanded from here
 message("The practice of declaring the Bind placeholders (_1, _2, ...) " "in the global namespace is deprecated. Please use " "<boost/bind/bind.hpp> + using namespace boost::placeholders, " "or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.")
 ^
data_converter.cpp:131:10: warning: variable 'n_bytes_read' set but not used [-Wunused-but-set-variable]
  size_t n_bytes_read = static_cast<size_t>(fread(buffer, 1, 3, fin));
         ^
2 warnings generated.
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/RcppProgress/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/BH/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/bigmemory/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c emma.cpp -o emma.o
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/RcppProgress/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/BH/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/bigmemory/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c genotype.cpp -o genotype.o
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/RcppProgress/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/BH/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/bigmemory/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c impute.cpp -o impute.o
impute.cpp:97:14: warning: unused variable 'r' [-Wunused-variable]
      size_t r = (block_start + j) / n;
             ^
impute.cpp:82:10: warning: variable 'n_bytes_read' set but not used [-Wunused-but-set-variable]
  size_t n_bytes_read = static_cast<size_t>(fread(buffer, 1, 3, fin));
         ^
2 warnings generated.
clang++ -arch arm64 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/RcppProgress/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/BH/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.2/bigmemory/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c pedigree.cpp -o pedigree.o
clang++ -arch arm64 -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/opt/R/arm64/lib -o simer.so RcppExports.o data_converter.o emma.o genotype.o impute.o pedigree.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/R/arm64/gfortran/lib/gcc/aarch64-apple-darwin20.6.0/12.0.1 -L/opt/R/arm64/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: dylib (/opt/R/arm64/gfortran/lib/libgfortran.dylib) was built for newer macOS version (11.5) than being linked (11.0)
ld: warning: could not create compact unwind for ___emutls_get_address: registers 23 and 24 not saved contiguously in frame
ld: warning: dylib (/opt/R/arm64/gfortran/lib/libquadmath.dylib) was built for newer macOS version (11.5) than being linked (11.0)
installing to /Volumes/Builds/packages/big-sur-arm64/results/4.2/simer.Rcheck/00LOCK-simer/00new/simer/libs
** generating debug symbols (dSYM)
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (simer)