############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD INSTALL distinct ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.15-bioc/R/library’ * installing *source* package ‘distinct’ ... ** using staged installation ** libs g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.15-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.15-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include' -I/usr/local/include -fpic -g -O2 -Wall -c Perm.cpp -o Perm.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.15-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.15-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include' -I/usr/local/include -fpic -g -O2 -Wall -c Perm_covariates.cpp -o Perm_covariates.o In file included from /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast.h:5, from Perm_covariates.cpp:2: /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast/matrix.hpp:553: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] 553 | #pragma omp parallel for | /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast/matrix.hpp:604: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] 604 | #pragma omp parallel for | /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast/matrix.hpp:621: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] 621 | #pragma omp parallel for | /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast/matrix.hpp:639: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] 639 | #pragma omp parallel for | /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast/matrix.hpp:654: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] 654 | #pragma omp parallel for | /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast/matrix.hpp:669: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] 669 | #pragma omp parallel for | Perm_covariates.cpp: In function ‘arma::vec my_rint_reg(const mat&, const vec&, Rcpp::IntegerVector, const unsigned int&, const unsigned int&, const double&, const unsigned int&)’: Perm_covariates.cpp:189:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 189 | for(int i=0;i tol) { | ~~~^~~~~~~~~ g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.15-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.15-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include' -I/usr/local/include -fpic -g -O2 -Wall -c Perm_covariates_parallel.cpp -o Perm_covariates_parallel.o In file included from /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast.h:5, from Perm_covariates_parallel.cpp:2: /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast/matrix.hpp:553: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] 553 | #pragma omp parallel for | /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast/matrix.hpp:604: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] 604 | #pragma omp parallel for | /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast/matrix.hpp:621: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] 621 | #pragma omp parallel for | /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast/matrix.hpp:639: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] 639 | #pragma omp parallel for | /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast/matrix.hpp:654: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] 654 | #pragma omp parallel for | /home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include/Rfast/matrix.hpp:669: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] 669 | #pragma omp parallel for | Perm_covariates_parallel.cpp: In function ‘arma::vec my_rint_reg_parallel(const mat&, const vec&, Rcpp::IntegerVector, const unsigned int&, const unsigned int&, const double&, const unsigned int&)’: Perm_covariates_parallel.cpp:189:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 189 | for(int i=0;i tol) { | ~~~^~~~~~~~~ g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.15-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.15-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include' -I/usr/local/include -fpic -g -O2 -Wall -c Perm_parallel.cpp -o Perm_parallel.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.15-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.15-bioc/R/library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.15-bioc/R/library/Rfast/include' -I/usr/local/include -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.15-bioc/R/lib -L/usr/local/lib -o distinct.so Perm.o Perm_covariates.o Perm_covariates_parallel.o Perm_parallel.o RcppExports.o -L/home/biocbuild/bbs-3.15-bioc/R/lib -lRlapack -L/home/biocbuild/bbs-3.15-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.15-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.15-bioc/R/library/00LOCK-distinct/00new/distinct/libs ** R ** data ** 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 * DONE (distinct)