* installing *source* package ‘malan’ ... ** package ‘malan’ 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/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c PROTO.cpp -o PROTO.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/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/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_build_pedigrees.cpp -o api_build_pedigrees.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_igraph.cpp -o api_igraph.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_load_data.cpp -o api_load_data.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_simulate.cpp -o api_simulate.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_simulate_helper.cpp -o api_simulate_helper.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_simulate_varying_size.cpp -o api_simulate_varying_size.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_utility_autosomal.cpp -o api_utility_autosomal.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_utility_autosomal_theta_unweighted.cpp -o api_utility_autosomal_theta_unweighted.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_utility_autosomal_theta_weighted.cpp -o api_utility_autosomal_theta_weighted.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_utility_haplotypes.cpp -o api_utility_haplotypes.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_utility_individual.cpp -o api_utility_individual.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_utility_misc.cpp -o api_utility_misc.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_utility_mixtures.cpp -o api_utility_mixtures.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_utility_mixtures_analyse.cpp -o api_utility_mixtures_analyse.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c api_utility_pedigree.cpp -o api_utility_pedigree.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c class_Individual.cpp -o class_Individual.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c class_Pedigree.cpp -o class_Pedigree.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c class_Population.cpp -o class_Population.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c class_SimulateChooseFather.cpp -o class_SimulateChooseFather.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c helper_Individual.cpp -o helper_Individual.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c helper_generation.cpp -o helper_generation.o clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppProgress/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -c test_misc.cpp -o test_misc.o clang++ -arch arm64 -std=gnu++17 -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 malan.so PROTO.o RcppExports.o api_build_pedigrees.o api_igraph.o api_load_data.o api_simulate.o api_simulate_helper.o api_simulate_varying_size.o api_utility_autosomal.o api_utility_autosomal_theta_unweighted.o api_utility_autosomal_theta_weighted.o api_utility_haplotypes.o api_utility_individual.o api_utility_misc.o api_utility_mixtures.o api_utility_mixtures_analyse.o api_utility_pedigree.o class_Individual.o class_Pedigree.o class_Population.o class_SimulateChooseFather.o helper_Individual.o helper_generation.o test_misc.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/4.3/malan.Rcheck/00LOCK-malan/00new/malan/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 (malan)