* installing *source* package ‘fastTopics’ ... ** package ‘fastTopics’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ using SDK: ‘MacOSX11.3.sdk’ clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include' -I/opt/R/x86_64/include -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DARMA_USE_BLAS -DARMA_DONT_USE_OPENMP -DARMA_USE_TBB_ALLOC -DRCPP_PARALLEL_USE_TBB=1 -DARMA_WARN_LEVEL=1 -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include' -I/opt/R/x86_64/include -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DARMA_USE_BLAS -DARMA_DONT_USE_OPENMP -DARMA_USE_TBB_ALLOC -DRCPP_PARALLEL_USE_TBB=1 -DARMA_WARN_LEVEL=1 -fPIC -falign-functions=64 -Wall -g -O2 -c ccd.cpp -o ccd.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include' -I/opt/R/x86_64/include -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DARMA_USE_BLAS -DARMA_DONT_USE_OPENMP -DARMA_USE_TBB_ALLOC -DRCPP_PARALLEL_USE_TBB=1 -DARMA_WARN_LEVEL=1 -fPIC -falign-functions=64 -Wall -g -O2 -c cost.cpp -o cost.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include' -I/opt/R/x86_64/include -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DARMA_USE_BLAS -DARMA_DONT_USE_OPENMP -DARMA_USE_TBB_ALLOC -DRCPP_PARALLEL_USE_TBB=1 -DARMA_WARN_LEVEL=1 -fPIC -falign-functions=64 -Wall -g -O2 -c misc.cpp -o misc.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include' -I/opt/R/x86_64/include -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DARMA_USE_BLAS -DARMA_DONT_USE_OPENMP -DARMA_USE_TBB_ALLOC -DRCPP_PARALLEL_USE_TBB=1 -DARMA_WARN_LEVEL=1 -fPIC -falign-functions=64 -Wall -g -O2 -c mixem.cpp -o mixem.o clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include' -I/opt/R/x86_64/include -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DARMA_USE_BLAS -DARMA_DONT_USE_OPENMP -DARMA_USE_TBB_ALLOC -DRCPP_PARALLEL_USE_TBB=1 -DARMA_WARN_LEVEL=1 -fPIC -falign-functions=64 -Wall -g -O2 -c pnmfem.cpp -o pnmfem.o In file included from RcppExports.cpp:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo:26: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:321:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:326:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:329:11: warning: INFO: see the documentation for details [-W#pragma-messages] #pragma message ("INFO: see the documentation for details") ^ In file included from misc.cpp:1: In file included from ./misc.h:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo:26: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:321:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hppIn file included from cost.cpp:1: In file included from ./misc.h:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo:26: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:321:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:326:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:329:11: warning: INFO: see the documentation for details [-W#pragma-messages] #pragma message ("INFO: see the documentation for details") ^ :326:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:329:11: warning: INFO: see the documentation for details [-W#pragma-messages] #pragma message ("INFO: see the documentation for details") ^ In file included from mixem.cpp:1: In file included from ./mixem.h:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo:26: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:321:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:326:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:329:11: warning: INFO: see the documentation for details [-W#pragma-messages] #pragma message ("INFO: see the documentation for details") ^ In file included from pnmfem.cpp:2: In file included from ./misc.h:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo:26: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:321:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:326:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:329:11: warning: INFO: see the documentation for details [-W#pragma-messages] #pragma message ("INFO: see the documentation for details") ^ In file included from ccd.cpp:2: In file included from ./misc.h:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo:26: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:321:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:326:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:329:11: warning: INFO: see the documentation for details [-W#pragma-messages] #pragma message ("INFO: see the documentation for details") ^ 3 warnings generated. clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include' -I/opt/R/x86_64/include -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DARMA_USE_BLAS -DARMA_DONT_USE_OPENMP -DARMA_USE_TBB_ALLOC -DRCPP_PARALLEL_USE_TBB=1 -DARMA_WARN_LEVEL=1 -fPIC -falign-functions=64 -Wall -g -O2 -c poismix.cpp -o poismix.o 3 warnings generated. clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include' -I/opt/R/x86_64/include -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DARMA_USE_BLAS -DARMA_DONT_USE_OPENMP -DARMA_USE_TBB_ALLOC -DRCPP_PARALLEL_USE_TBB=1 -DARMA_WARN_LEVEL=1 -fPIC -falign-functions=64 -Wall -g -O2 -c poisson.cpp -o poisson.o 3 warnings generated. clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/Rcpp/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppParallel/include' -I'/Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include' -I/opt/R/x86_64/include -DARMA_DONT_PRINT_ERRORS -DARMA_NO_DEBUG -DARMA_USE_BLAS -DARMA_DONT_USE_OPENMP -DARMA_USE_TBB_ALLOC -DRCPP_PARALLEL_USE_TBB=1 -DARMA_WARN_LEVEL=1 -fPIC -falign-functions=64 -Wall -g -O2 -c scd.cpp -o scd.o In file included from poismix.cpp:1: In file included from ./poismix.h:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo:26: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:321:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:326:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:329:11: warning: INFO: see the documentation for details [-W#pragma-messages] #pragma message ("INFO: see the documentation for details") ^ 3 warnings generated. In file included from poisson.cpp:1: In file included from ./misc.h:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo:26: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:321:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:326:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:329:11: warning: INFO: see the documentation for details [-W#pragma-messages] #pragma message ("INFO: see the documentation for details") ^ 3 warnings generated. In file included from scd.cpp:2: In file included from ./misc.h:4: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57: In file included from /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo:26: /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:321:11: warning: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed [-W#pragma-messages] #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:326:13: warning: INFO: suggest to use ARMA_WARN_LEVEL option instead [-W#pragma-messages] #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") ^ /Volumes/Builds/packages/big-sur-x86_64/Rlib/4.3/RcppArmadillo/include/armadillo_bits/config.hpp:329:11: warning: INFO: see the documentation for details [-W#pragma-messages] #pragma message ("INFO: see the documentation for details") ^ 3 warnings generated. 3 warnings generated. 3 warnings generated. 3 warnings generated. clang++ -arch x86_64 -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/x86_64/lib -o fastTopics.so RcppExports.o ccd.o cost.o misc.o mixem.o pnmfem.o poismix.o poisson.o scd.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-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.3/fastTopics.Rcheck/00LOCK-fastTopics/00new/fastTopics/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 (fastTopics)