Install log for 'bgms'

* installing *source* package ‘bgms’ ...
** this is package ‘bgms’ version ‘0.1.6.3’
** package ‘bgms’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
specified C++20
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++20
Warning in system2("xcrun", "--show-sdk-version", TRUE, TRUE) :
  running command ''xcrun' --show-sdk-version 2>&1' had status 1
using SDK: ‘NA’
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c bgm/bgm_helper.cpp -o bgm/bgm_helper.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c bgm/bgm_logp_and_grad.cpp -o bgm/bgm_logp_and_grad.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c bgm/bgm_sampler.cpp -o bgm/bgm_sampler.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c bgmCompare/bgmCompare_helper.cpp -o bgmCompare/bgmCompare_helper.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c bgmCompare/bgmCompare_logp_and_grad.cpp -o bgmCompare/bgmCompare_logp_and_grad.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c bgmCompare/bgmCompare_sampler.cpp -o bgmCompare/bgmCompare_sampler.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c bgmCompare_interface.cpp -o bgmCompare_interface.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c bgm_interface.cpp -o bgm_interface.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c math/custom_exp.cpp -o math/custom_exp.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c math/e_exp.cpp -o math/e_exp.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c mcmc/mcmc_hmc.cpp -o mcmc/mcmc_hmc.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c mcmc/mcmc_leapfrog.cpp -o mcmc/mcmc_leapfrog.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c mcmc/mcmc_nuts.cpp -o mcmc/mcmc_nuts.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c mcmc/mcmc_rwm.cpp -o mcmc/mcmc_rwm.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c mcmc/mcmc_utils.cpp -o mcmc/mcmc_utils.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c mrf_prediction.cpp -o mrf_prediction.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c mrf_simulation.cpp -o mrf_simulation.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c priors/sbm_edge_prior.cpp -o priors/sbm_edge_prior.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c sbm_edge_prior_interface.cpp -o sbm_edge_prior_interface.o
clang++ -arch x86_64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DARMA_NO_DEBUG -I. -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppArmadillo/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/dqrng/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/BH/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c utils/progress_manager.cpp -o utils/progress_manager.o
clang++ -arch x86_64 -std=gnu++20 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o bgms.so RcppExports.o bgm/bgm_helper.o bgm/bgm_logp_and_grad.o bgm/bgm_sampler.o bgmCompare/bgmCompare_helper.o bgmCompare/bgmCompare_logp_and_grad.o bgmCompare/bgmCompare_sampler.o bgmCompare_interface.o bgm_interface.o math/custom_exp.o math/e_exp.o mcmc/mcmc_hmc.o mcmc/mcmc_leapfrog.o mcmc/mcmc_nuts.o mcmc/mcmc_rwm.o mcmc/mcmc_utils.o mrf_prediction.o mrf_simulation.o priors/sbm_edge_prior.o sbm_edge_prior_interface.o utils/progress_manager.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/opt/gfortran/lib/gcc/x86_64-apple-darwin20.0/14.2.0 -L/opt/gfortran/lib -lemutls_w -lheapt_w -lgfortran -lquadmath -L/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.6/RcppParallel/lib -ltbb -ltbbmalloc -F/Library/Frameworks/R.framework/.. -framework R
installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.6/bgms.Rcheck/00LOCK-bgms/00new/bgms/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
*** 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 (bgms)