* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’ * installing *source* package ‘ProFAST’ ... ** package ‘ProFAST’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpdR6lDM/R.INSTALL2c323523e32159/ProFAST/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 "-DARMA_64BIT_WORD=1" -fpic -g -O2 -Wall -pedantic -mtune=native -c DR_removebatch.cpp -o DR_removebatch.o DR_removebatch.cpp: In function ‘void runICM_sp_embed(const arma::field >&, arma::field >&, arma::field >&, const arma::mat&, const arma::mat&, const arma::cube&, arma::cube&, const arma::field >&, const arma::vec&, const arma::vec&, int, double&, arma::field >&, arma::field >&, arma::field >&, arma::field >&, arma::field >&, arma::field >&, arma::field >&, arma::field >&, const bool&)’: DR_removebatch.cpp:432:7: warning: unused variable ‘i’ [-Wunused-variable] 432 | int i, iter, k, n; | ^ 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 "-DARMA_64BIT_WORD=1" -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 "-DARMA_64BIT_WORD=1" -fpic -g -O2 -Wall -pedantic -mtune=native -c alignExp.cpp -o alignExp.o alignExp.cpp: In function ‘Rcpp::List correct_one_gene(const Rcpp::List&, const Rcpp::List&, const Rcpp::List&, const arma::mat&, const Rcpp::List&, const arma::vec&, const arma::vec&, const arma::vec&, const arma::vec&, const arma::vec&, const int&, const double&, const bool&)’: alignExp.cpp:165:8: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare] 165 | if(M != Tm.n_rows){ | ~~^~~~~~~~~~~~ alignExp.cpp:180:7: warning: unused variable ‘n’ [-Wunused-variable] 180 | int n; | ^ 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 "-DARMA_64BIT_WORD=1" -fpic -g -O2 -Wall -pedantic -mtune=native -c alignExps.cpp -o alignExps.o alignExps.cpp: In function ‘Rcpp::List correct_genes(const Rcpp::List&, const Rcpp::List&, const Rcpp::List&, const arma::mat&, const Rcpp::List&, const arma::mat&, const arma::mat&, const arma::mat&, const arma::mat&, const arma::mat&, const int&, const double&, const bool&)’: alignExps.cpp:255:8: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare] 255 | if(M != Tm.n_rows){ | ~~^~~~~~~~~~~~ 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 "-DARMA_64BIT_WORD=1" -fpic -g -O2 -Wall -pedantic -mtune=native -c cofast_util.cpp -o cofast_util.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 "-DARMA_64BIT_WORD=1" -fpic -g -O2 -Wall -pedantic -mtune=native -c profast.cpp -o profast.o profast.cpp: In function ‘Rcpp::List profast_g_cpp(const Rcpp::List&, const Rcpp::List&, const arma::mat&, const arma::mat&, const arma::mat&, const arma::cube&, const Rcpp::List&, const int&, const double&, const bool&, const bool&, const bool&)’: profast.cpp:408:7: warning: variable ‘n’ set but not used [-Wunused-but-set-variable] 408 | int n; | ^ g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o ProFAST.so DR_removebatch.o RcppExports.o alignExp.o alignExps.o cofast_util.o profast.o -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/RtmpdR6lDM/R.INSTALL2c323523e32159/ProFAST/src' make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpdR6lDM/R.INSTALL2c323523e32159/ProFAST/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpdR6lDM/R.INSTALL2c323523e32159/ProFAST/src' installing to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-ProFAST/00new/ProFAST/libs ** 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 ** 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 ‘ProFAST’ as ‘ProFAST_1.4_R_x86_64-pc-linux-gnu.tar.gz’ * DONE (ProFAST)