* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’ * installing *source* package ‘surtvep’ ... ** package ‘surtvep’ successfully unpacked and MD5 sums checked ** using staged installation ./configure: 7: cannot create inst/cc: Directory nonexistent ./configure: 8: cannot create inst/cc: Directory nonexistent gcc-13 13.2.0 zlib 1.3 is available ok R CMD SHLIB supports OpenMP without any extra hint ** libs using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpwPtS5C/R.INSTALL2c018057b4b631/surtvep/src' g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c PenalizeStopCpp.cpp -o PenalizeStopCpp.o In file included from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/RcppCommon.h:188, from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25, from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include/RcppArmadillo.h:29, from PenalizeStopCpp.cpp:5: In function ‘SEXPREC* Rcpp::internal::primitive_wrap__impl__cast(const T&, Rcpp::traits::false_type) [with T = int]’, inlined from ‘SEXPREC* Rcpp::internal::primitive_wrap__impl(const T&, Rcpp::traits::r_type_primitive_tag) [with T = int]’ at /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/internal/wrap.h:465:46, inlined from ‘SEXPREC* Rcpp::internal::primitive_wrap(const T&) [with T = int]’ at /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/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 = int]’ at /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/internal/wrap.h:744:34, inlined from ‘SEXPREC* Rcpp::wrap(const T&) [with T = int]’ at /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/internal/wrap_end.h:30:38, inlined from ‘Rcpp::internal::generic_name_proxy& Rcpp::internal::generic_name_proxy::operator=(const T&) [with T = int; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/vector/proxy.h:157:11, inlined from ‘Rcpp::List Lambda_estimate_ties2(int, arma::colvec&, arma::mat&, arma::mat&, arma::mat&, arma::vec&)’ at PenalizeStopCpp.cpp:2649:25: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include/Rcpp/internal/wrap.h:442:41: warning: ‘index’ may be used uninitialized [-Wmaybe-uninitialized] 442 | r_vector_start(x)[0] = object; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ PenalizeStopCpp.cpp: In function ‘Rcpp::List Lambda_estimate_ties2(int, arma::colvec&, arma::mat&, arma::mat&, arma::mat&, arma::vec&)’: PenalizeStopCpp.cpp:2625:13: note: ‘index’ was declared here 2625 | int index; | ^~~~~ g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppArmadillo/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c header.cpp -o header.o g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o surtvep.so PenalizeStopCpp.o RcppExports.o header.o -fopenmp -llapack -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpwPtS5C/R.INSTALL2c018057b4b631/surtvep/src' make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpwPtS5C/R.INSTALL2c018057b4b631/surtvep/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpwPtS5C/R.INSTALL2c018057b4b631/surtvep/src' installing to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-surtvep/00new/surtvep/libs ** R ** data *** moving datasets to lazyload DB ** 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 * creating tarball packaged installation of ‘surtvep’ as ‘surtvep_1.0.0_R_x86_64-pc-linux-gnu.tar.gz’ * DONE (surtvep)