* installing *source* package ‘SAMtool’ ...
** package ‘SAMtool’ 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/TMB/include' -I'/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c SAMtool.cpp -o SAMtool.o
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:88:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Dense:1:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Core:540:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:88:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Dense:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/LU:47:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:88:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Dense:3:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Cholesky:12:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Jacobi:29:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:88:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Dense:3:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Cholesky:43:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:88:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Dense:4:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/QR:15:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Householder:27:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:88:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Dense:4:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/QR:48:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:88:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Dense:5:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/SVD:48:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:88:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Dense:6:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Geometry:58:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:88:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Dense:7:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Eigenvalues:58:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:92:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/SparseCore:66:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:92:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Sparse:27:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/OrderingMethods:71:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:92:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/SparseCholesky:43:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:92:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Sparse:32:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/SparseQR:34:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from SAMtool.cpp:2:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/TMB/include/TMB.hpp:92:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/Sparse:33:
In file included from /Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/IterativeLinearSolvers:46:
/Volumes/Builds/packages/big-sur-arm64/Rlib/4.3/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:14:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
14 warnings generated.
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 SAMtool.so SAMtool.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Volumes/Builds/packages/big-sur-arm64/results/4.3/SAMtool.Rcheck/00LOCK-SAMtool/00new/SAMtool/libs
** generating debug symbols (dSYM)
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for ‘simulate’ in package ‘SAMtool’
** help
*** installing help indices
*** copying figures
** 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 (SAMtool)