* installing *source* package ‘Bayesrel’ ...
** package ‘Bayesrel’ successfully unpacked and MD5 sums checked
** using staged installation
Using bundled CSDP
checking for gcc... clang -mmacosx-version-min=10.13
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether clang -mmacosx-version-min=10.13 accepts -g... yes
checking for clang -mmacosx-version-min=10.13 option to accept ISO C89... none needed
checking how to run the C preprocessor... clang -mmacosx-version-min=10.13 -E
checking whether we are using the GNU C++ compiler... yes
checking whether clang++ -mmacosx-version-min=10.13 -std=gnu++14 accepts -g... yes
checking how to run the C++ preprocessor... clang++ -mmacosx-version-min=10.13 -std=gnu++14 -E
checking whether we are using the GNU C++ compiler... (cached) yes
checking whether clang++ -mmacosx-version-min=10.13 -std=gnu++14 accepts -g... (cached) yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -g -O2 -c BayesrelCpp.cpp -o BayesrelCpp.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -g -O2 -c LowBoundsCpp.cpp -o LowBoundsCpp.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -g -O2 -c convertCpp.cpp -o convertCpp.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -g -O2 -c customsdpCpp.cpp -o customsdpCpp.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -g -O2 -c initArma.cpp -o initArma.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -ICsdp/include -DNOSHORTS -DARMA_NO_DEBUG=1 -DARMA_DONT_USE_FORTRAN_HIDDEN_ARGS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -I/usr/local/include -fPIC -Wall -g -O2 -c pfaCpp.cpp -o pfaCpp.o
(cd Csdp/lib && \
(make libsdp.a CC="clang -mmacosx-version-min=10.13" CFLAGS="-DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include" AR="ar" RANLIB="ranlib") && \
touch Csdp.ts)
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o readprob.o readprob.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o sdp.o sdp.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o op_o.o op_o.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o psd_feas.o psd_feas.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o op_a.o op_a.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o op_at.o op_at.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o Fnorm.o Fnorm.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o calc_pobj.o calc_pobj.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o calc_dobj.o calc_dobj.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o trace_prod.o trace_prod.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o zero_mat.o zero_mat.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o mat_mult.o mat_mult.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o sym_mat.o sym_mat.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o copy_mat.o copy_mat.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o addscaledmat.o addscaledmat.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o user_exit.o user_exit.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o make_i.o make_i.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o allocmat.o allocmat.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o initsoln.o initsoln.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o initparams.o initparams.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o add_mat.o add_mat.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o writesol.o writesol.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o readsol.o readsol.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o easysdp.o easysdp.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o writeprob.o writeprob.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o solvesys.o solvesys.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o makefill.o makefill.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o mat_multsp.o mat_multsp.c
mat_multsp.c:55:7: warning: unused variable 'thread_num' [-Wunused-variable]
int thread_num;
^
mat_multsp.c:54:7: warning: unused variable 'total_threads' [-Wunused-variable]
int total_threads;
^
mat_multsp.c:291:7: warning: unused variable 'thread_num' [-Wunused-variable]
int thread_num;
^
mat_multsp.c:290:7: warning: unused variable 'total_threads' [-Wunused-variable]
int total_threads;
^
4 warnings generated.
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o norms.o norms.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o linesearch.o linesearch.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o matvec.o matvec.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o chol.o chol.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o qreig.o qreig.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o tweakgap.o tweakgap.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o freeprob.o freeprob.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o packed.o packed.c
clang -mmacosx-version-min=10.13 -DDEFINE_FUNCTIONS_LAPACK_BLAS -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/Rcpp/include' -I'/Volumes/Builds/packages/high-sierra-x86_64/Rlib/4.2/RcppArmadillo/include' -Wall -g -O2 -fPIC -DNOSHORTS -I../include -c -o sortentries.o sortentries.c
ar cr libsdp.a readprob.o sdp.o op_o.o psd_feas.o op_a.o op_at.o Fnorm.o calc_pobj.o calc_dobj.o trace_prod.o zero_mat.o mat_mult.o sym_mat.o copy_mat.o addscaledmat.o user_exit.o make_i.o allocmat.o initsoln.o initparams.o add_mat.o writesol.o readsol.o easysdp.o writeprob.o solvesys.o makefill.o mat_multsp.o norms.o linesearch.o matvec.o chol.o qreig.o tweakgap.o freeprob.o packed.o sortentries.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o Bayesrel.so BayesrelCpp.o LowBoundsCpp.o RcppExports.o convertCpp.o customsdpCpp.o initArma.o pfaCpp.o -LCsdp/lib -lsdp -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Volumes/Builds/packages/high-sierra-x86_64/results/4.2/Bayesrel.Rcheck/00LOCK-Bayesrel/00new/Bayesrel/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
** 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 (Bayesrel)