* installing *source* package 'bayou' ...
** using staged installation
** libs
using C++ compiler: 'g++.exe (GCC) 13.2.0'
g++ -std=gnu++17  -I"D:/RCompile/recent/R/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c branches.cpp -o branches.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c threepoint.cpp -o threepoint.o
In file included from D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/RcppCommon.h:188,
                 from D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25,
                 from D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include/RcppArmadillo.h:29,
                 from threepoint.cpp:1:
In function 'SEXPREC* Rcpp::internal::primitive_wrap__impl__cast(const T&, Rcpp::traits::false_type) [with T = double]',
    inlined from 'SEXPREC* Rcpp::internal::primitive_wrap__impl(const T&, Rcpp::traits::r_type_primitive_tag) [with T = double]' at D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/Rcpp/internal/wrap.h:465:46,
    inlined from 'SEXPREC* Rcpp::internal::primitive_wrap(const T&) [with T = double]' at D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/Rcpp/internal/wrap.h:489:40,
    inlined from 'SEXPREC* Rcpp::internal::wrap_dispatch(const T&, Rcpp::traits::wrap_type_primitive_tag) [with T = double]' at D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/Rcpp/internal/wrap.h:744:34,
    inlined from 'SEXPREC* Rcpp::wrap(const T&) [with T = double]' at D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/Rcpp/internal/wrap_end.h:30:38,
    inlined from 'static SEXPREC* Rcpp::internal::generic_element_converter<RTYPE>::get(const T&) [with T = double; int RTYPE = 19]' at D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/Rcpp/vector/converter.h:80:23,
    inlined from 'static void Rcpp::Vector<RTYPE, StoragePolicy>::replace_element__dispatch__isArgument(Rcpp::traits::false_type, iterator, SEXP, R_xlen_t, const U&) [with U = Rcpp::traits::named_object<double>; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]' at D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/Rcpp/vector/Vector.h:532:13,
    inlined from 'static void Rcpp::Vector<RTYPE, StoragePolicy>::replace_element__dispatch(Rcpp::traits::true_type, iterator, SEXP, R_xlen_t, const U&) [with U = Rcpp::traits::named_object<double>; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]' at D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/Rcpp/vector/Vector.h:525:46,
    inlined from 'static void Rcpp::Vector<RTYPE, StoragePolicy>::replace_element(iterator, SEXP, R_xlen_t, const U&) [with U = Rcpp::traits::named_object<double>; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]' at D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/Rcpp/vector/Vector.h:514:34,
    inlined from 'static Rcpp::Vector<RTYPE, StoragePolicy> Rcpp::Vector<RTYPE, StoragePolicy>::create__dispatch(Rcpp::traits::true_type, const T1&, const T2&, const T3&) [with T1 = Rcpp::traits::named_object<arma::Col<double> >; T2 = Rcpp::traits::named_object<double>; T3 = Rcpp::traits::named_object<arma::Col<double> >; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]' at D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/Rcpp/generated/Vector__create.h:184:24,
    inlined from 'static Rcpp::Vector<RTYPE, StoragePolicy> Rcpp::Vector<RTYPE, StoragePolicy>::create(const T1&, const T2&, const T3&) [with T1 = Rcpp::traits::named_object<arma::Col<double> >; T2 = Rcpp::traits::named_object<double>; T3 = Rcpp::traits::named_object<arma::Col<double> >; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]' at D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/Rcpp/generated/Vector__create.h:156:25,
    inlined from 'SEXPREC* C_transf_branch_lengths(SEXP, int, Rcpp::NumericVector, double)' at threepoint.cpp:148:30:
D:/RCompile/CRANpkg/lib/4.5/Rcpp/include/Rcpp/internal/wrap.h:442:41: warning: 'root' may be used uninitialized [-Wmaybe-uninitialized]
  442 |             r_vector_start<RTYPE>(x)[0] = object;
      |             ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~
threepoint.cpp: In function 'SEXPREC* C_transf_branch_lengths(SEXP, int, Rcpp::NumericVector, double)':
threepoint.cpp:102:20: note: 'root' was declared here
  102 |     double d1, d2, root;
      |                    ^~~~
g++ -std=gnu++17  -I"D:/RCompile/recent/R/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c weightmatrix.cpp -o weightmatrix.o
weightmatrix.cpp: In function 'SEXPREC* C_weightmatrix(SEXP, SEXP)':
weightmatrix.cpp:81:24: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
   81 |         for(int j=0; j < mstart.n_rows; ++j){
      |                      ~~^~~~~~~~~~~~~~~
g++ -std=gnu++17 -shared -s -static-libgcc -o bayou.dll tmp.def RcppExports.o branches.o threepoint.o weightmatrix.o -LD:/RCompile/recent/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -Ld:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -Ld:/rtools44/x86_64-w64-mingw32.static.posix/lib -LD:/RCompile/recent/R/bin/x64 -lR
installing to d:/RCompile/CRANincoming/R-devel/lib/00LOCK-bayou/00new/bayou/libs/x64
** R
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (bayou)