* installing *source* package 'mets' ... ** package 'mets' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc.exe (GCC) 12.3.0' using Fortran compiler: 'GNU Fortran (GCC) 12.3.0' using C++ compiler: 'g++.exe (GCC) 12.3.0' make[1]: Entering directory '/d/temp/2024_12_09_01_50_00_28404/RtmpySrs1S/R.INSTALL658454c235dc/mets/src' g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/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-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c aalenfrailty.cpp -o aalenfrailty.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c apply.cpp -o apply.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c binomial-twostage.cpp -o binomial-twostage.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c biprobit.cpp -o biprobit.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c claytonoakes.cpp -o claytonoakes.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c clusterindex.cpp -o clusterindex.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c cor.cpp -o cor.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c fastcox.cpp -o fastcox.o fastcox.cpp: In function 'SEXPREC* cumsumstratasumR(SEXP, SEXP, SEXP)': fastcox.cpp:993:17: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 993 | if ((first>0.1) && (i>=1)&& (ss<nstrata) && (ss>=0)) | ^~ fastcox.cpp:995:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 995 | lagressum(i)=tmpsum(ss); | ^~~~~~~~~ gcc -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c init.c -o init.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mvn.cpp -o mvn.o mvn.cpp: In function 'arma::vec loglikmvn(arma::mat&, arma::mat&, arma::uvec&, arma::mat&, arma::mat&, arma::mat&, arma::mat&, arma::mat&, double)': mvn.cpp:297:20: warning: unused variable 'logdetS' [-Wunused-variable] 297 | double logdetS0, logdetS, sign; | ^~~~~~~ mvn.cpp:297:29: warning: unused variable 'sign' [-Wunused-variable] 297 | double logdetS0, logdetS, sign; | ^~~~ g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c pch.cpp -o pch.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c prop-odd.cpp -o prop-odd.o gcc -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c randomF77.c -o randomF77.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sim-tools.cpp -o sim-tools.o sim-tools.cpp: In function 'arma::uvec approx(const arma::mat&, const arma::mat&, unsigned int)': sim-tools.cpp:17:20: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare] 17 | for (int i=0; i<newtime.n_elem; i++) { | ~^~~~~~~~~~~~~~~ sim-tools.cpp: In function 'arma::mat interpolate(const arma::mat&, double, bool)': sim-tools.cpp:60:14: warning: unused variable 'delta' [-Wunused-variable] 60 | double delta = curtime-time(cur); | ^~~~~ sim-tools.cpp:64:12: warning: unused variable 'tau2' [-Wunused-variable] 64 | double tau2 = tn-input2(N-2,0); | ^~~~ sim-tools.cpp: In function 'arma::uvec pmini(const arma::uvec&, int)': sim-tools.cpp:72:19: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare] 72 | for(int i=0; i<y.n_elem; ++i) | ~^~~~~~~~~ sim-tools.cpp:73:22: warning: comparison of integer expressions of different signedness: 'const unsigned int' and 'const int' [-Wsign-compare] 73 | if (y(i) < N) res(i) = y(i); else res(i) = N; | ~~~~~^~~ sim-tools.cpp: In function 'arma::colvec pminv(const arma::colvec&, double)': sim-tools.cpp:80:19: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare] 80 | for(int i=0; i<y.n_elem; ++i) | ~^~~~~~~~~ sim-tools.cpp: In function 'arma::mat interpolate2(const arma::mat&, const arma::colvec&)': sim-tools.cpp:98:18: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] 98 | for(int i=0;i<N;++i) | ~^~ sim-tools.cpp: In function 'double interpolate3(const arma::mat&, double)': sim-tools.cpp:124:18: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] 124 | for(int i=0;i<N;++i) | ~^~ sim-tools.cpp: In function 'arma::colvec simbase(const arma::mat&, double, double, double, int)': sim-tools.cpp:156:29: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'const int' [-Wsign-compare] 156 | for (unsigned i=0; i<maxit; i++) { | ~^~~~~~ sim-tools.cpp: In function 'arma::mat simGL(const arma::mat&, const arma::colvec&, const arma::colvec&, const arma::colvec&, const arma::colvec&, const arma::colvec&, const arma::colvec&, int, double, int, double)': sim-tools.cpp:195:6: warning: label 'arma' defined but not used [-Wunused-label] 195 | arma:mat basei=dcum; | ^~~~ sim-tools.cpp: In function 'arma::mat simSurvZ(const arma::mat&, const arma::colvec&, const arma::colvec&, double, int)': sim-tools.cpp:241:5: warning: label 'arma' defined but not used [-Wunused-label] 241 | arma:mat basei=St; | ^~~~ g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c survival-twostage.cpp -o survival-twostage.o survival-twostage.cpp: In function 'SEXPREC* twostageloglikeRV(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)': survival-twostage.cpp:2077:57: warning: variable 'sdj' set but not used [-Wunused-but-set-variable] 2077 | double dl1,dl2,ll1,ll2,ll=1,Li,Lk,diff=0,loglikecont=0,sdj=0; | ^~~ survival-twostage.cpp: In function 'SEXPREC* survivalloglikeRVpairs(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)': survival-twostage.cpp:2762:21: warning: variable 'thetak' set but not used [-Wunused-but-set-variable] 2762 | double llt=1,ssf=0,thetak=0; | ^~~~~~ In file included from D:/RCompile/CRANpkg/lib/4.3/Rcpp/include/RcppCommon.h:189, from D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25, from D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include/RcppArmadillo.h:29, from survival-twostage.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/4.3/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/4.3/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/4.3/Rcpp/include/Rcpp/internal/wrap.h:744:34, inlined from 'SEXPREC* Rcpp::wrap(const T&) [with T = double]' at D:/RCompile/CRANpkg/lib/4.3/Rcpp/include/Rcpp/internal/wrap_end.h:30:38, inlined from 'Rcpp::internal::generic_name_proxy<RTYPE, StoragePolicy>& Rcpp::internal::generic_name_proxy<RTYPE, StoragePolicy>::operator=(const T&) [with T = double; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]' at D:/RCompile/CRANpkg/lib/4.3/Rcpp/include/Rcpp/vector/proxy.h:157:11, inlined from 'SEXPREC* claytonoakesbinRV(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)' at survival-twostage.cpp:1800:16: D:/RCompile/CRANpkg/lib/4.3/Rcpp/include/Rcpp/internal/wrap.h:442:41: warning: 'like' may be used uninitialized [-Wmaybe-uninitialized] 442 | r_vector_start<RTYPE>(x)[0] = object; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ survival-twostage.cpp: In function 'SEXPREC* claytonoakesbinRV(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)': survival-twostage.cpp:1786:16: note: 'like' was declared here 1786 | double like; | ^~~~ g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.3.3/include" -DNDEBUG -I../inst/include -I. -I'D:/RCompile/CRANpkg/lib/4.3/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.3/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.3/mvtnorm/include' -I"d:/rtools43/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c tools.cpp -o tools.o gfortran -pedantic -O2 -mfpmath=sse -msse2 -mstackrealign -c tvpack.f -o tvpack.o g++ -std=gnu++17 -shared -s -static-libgcc -o mets.dll tmp.def RcppExports.o aalenfrailty.o apply.o binomial-twostage.o biprobit.o claytonoakes.o clusterindex.o cor.o fastcox.o init.o mvn.o pch.o prop-odd.o randomF77.o sim-tools.o survival-twostage.o tools.o tvpack.o -LD:/RCompile/recent/R-4.3.3/bin/x64 -lRlapack -LD:/RCompile/recent/R-4.3.3/bin/x64 -lRblas -lgfortran -lm -lquadmath -Ld:/rtools43/x86_64-w64-mingw32.static.posix/lib/x64 -Ld:/rtools43/x86_64-w64-mingw32.static.posix/lib -lgfortran -lm -lquadmath -LD:/RCompile/recent/R-4.3.3/bin/x64 -lR make[1]: Leaving directory '/d/temp/2024_12_09_01_50_00_28404/RtmpySrs1S/R.INSTALL658454c235dc/mets/src' make[1]: Entering directory '/d/temp/2024_12_09_01_50_00_28404/RtmpySrs1S/R.INSTALL658454c235dc/mets/src' make[1]: Leaving directory '/d/temp/2024_12_09_01_50_00_28404/RtmpySrs1S/R.INSTALL658454c235dc/mets/src' installing to d:/Rcompile/CRANpkg/lib/4.3/00LOCK-mets/00new/mets/libs/x64 ** R ** data ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 'mets' as mets_1.3.4.zip * DONE (mets)