* installing *source* package 'rubias' ...
** this is package 'rubias' version '0.3.4'
** package 'rubias' successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: 'g++.exe (GCC) 14.2.0'
make[1]: Entering directory '/d/temp/2025_04_03_01_50_00_23123/RtmpianAqf/R.INSTALL2520c72776499/rubias/src'
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/RcppParallel/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -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/RcppParallel/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rcpp_close_matchers.cpp -o rcpp_close_matchers.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/RcppParallel/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rcpp_fullBayes_mcmc.cpp -o rcpp_fullBayes_mcmc.o
In file included from D:/RCompile/CRANpkg/lib/4.5/RcppParallel/include/tbb/tbb.h:32,
from D:/RCompile/CRANpkg/lib/4.5/RcppParallel/include/RcppParallel/TBB.h:10,
from D:/RCompile/CRANpkg/lib/4.5/RcppParallel/include/RcppParallel.h:24,
from rcpp_fullBayes_mcmc.cpp:2:
D:/RCompile/CRANpkg/lib/4.5/RcppParallel/include/tbb/atomic.h: In instantiation of 'tbb::atomic<T>& tbb::internal::as_atomic(T&) [with T = long unsigned int]':
D:/RCompile/CRANpkg/lib/4.5/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here
251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id);
| ~~~~~~~~~^~~~~~~~~~~~~~~~
D:/RCompile/CRANpkg/lib/4.5/RcppParallel/include/tbb/atomic.h:544:12: warning: casting 'long unsigned int' to 'tbb::atomic<long unsigned int>&' does not use 'constexpr tbb::atomic<long unsigned int>::atomic(long unsigned int)' [-Wcast-user-defined]
544 | return (atomic<T>&)t;
| ^~~~~~~~~~~~~
D:/RCompile/CRANpkg/lib/4.5/RcppParallel/include/tbb/atomic.h: In instantiation of 'tbb::atomic<T>& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]':
D:/RCompile/CRANpkg/lib/4.5/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here
291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL )
| ~~~~~~~~~^~~~~~~~~~~~~~~~~~~
D:/RCompile/CRANpkg/lib/4.5/RcppParallel/include/tbb/atomic.h:544:12: warning: casting 'tbb::interface5::internal::hash_map_base::bucket*' to 'tbb::atomic<tbb::interface5::internal::hash_map_base::bucket*>&' does not use 'constexpr tbb::atomic<T*>::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]' [-Wcast-user-defined]
544 | return (atomic<T>&)t;
| ^~~~~~~~~~~~~
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/RcppParallel/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rcpp_gprobs.cpp -o rcpp_gprobs.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/RcppParallel/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rcpp_indiv_specific_logl_means_and_vars.cpp -o rcpp_indiv_specific_logl_means_and_vars.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/RcppParallel/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rcpp_per_locus_logls.cpp -o rcpp_per_locus_logls.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/RcppParallel/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rcpp_sampling.cpp -o rcpp_sampling.o
rcpp_sampling.cpp: In function 'Rcpp::IntegerVector samp_from_mat(Rcpp::NumericMatrix)':
rcpp_sampling.cpp:38:12: warning: 'res' may be used uninitialized [-Wmaybe-uninitialized]
38 | out[c] = res;
rcpp_sampling.cpp:21:12: note: 'res' was declared here
21 | int r,c, res;
| ^~~
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/RcppParallel/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c rcpp_simulation.cpp -o rcpp_simulation.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/RcppParallel/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c simple_pi_em.cpp -o simple_pi_em.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/RcppParallel/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c simple_pi_mcmc.cpp -o simple_pi_mcmc.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/RcppParallel/include' -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -DRCPP_PARALLEL_USE_TBB=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c utilities.cpp -o utilities.o
g++ -std=gnu++17 -shared -s -static-libgcc -o rubias.dll tmp.def RcppExports.o rcpp_close_matchers.o rcpp_fullBayes_mcmc.o rcpp_gprobs.o rcpp_indiv_specific_logl_means_and_vars.o rcpp_per_locus_logls.o rcpp_sampling.o rcpp_simulation.o simple_pi_em.o simple_pi_mcmc.o utilities.o -LD:/RCompile/CRANpkg/lib/4.5/RcppParallel/libs/x64 -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.5/RcppParallel/lib/x64 -ltbb -ltbbmalloc -Ld:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64 -Ld:/rtools45/x86_64-w64-mingw32.static.posix/lib -LD:/RCompile/recent/R/bin/x64 -lR
make[1]: Leaving directory '/d/temp/2025_04_03_01_50_00_23123/RtmpianAqf/R.INSTALL2520c72776499/rubias/src'
make[1]: Entering directory '/d/temp/2025_04_03_01_50_00_23123/RtmpianAqf/R.INSTALL2520c72776499/rubias/src'
make[1]: Leaving directory '/d/temp/2025_04_03_01_50_00_23123/RtmpianAqf/R.INSTALL2520c72776499/rubias/src'
installing to d:/Rcompile/CRANpkg/lib/4.5/00LOCK-rubias/00new/rubias/libs/x64
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'rubias' as rubias_0.3.4.zip
* DONE (rubias)