Install log for 'fastTopics'

* 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)