############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD INSTALL mbkmeans ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library’ * installing *source* package ‘mbkmeans’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (GCC) 10.3.1’ using C++11 g++ -std=gnu++11 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/beachmat/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/ClusterR/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/beachmat/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/ClusterR/include' -I/usr/local/include -fPIC -g -O2 -Wall -c mini_batch.cpp -o mini_batch.o In file included from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppArmadillo/include/armadillo:26, from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57, from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppArmadillo/include/RcppArmadillo.h:29, from mini_batch.cpp:2: /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:321:86: note: ‘#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed’ 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:326:75: note: ‘#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead’ 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:329:61: note: ‘#pragma message: INFO: see the documentation for details’ 329 | #pragma message ("INFO: see the documentation for details") | ^ In file included from mini_batch.cpp:3: /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/ClusterR/include/ClusterRHeader.h: In member function ‘arma::mat clustR::ClustHeader::KMEANS_arma(arma::mat&, int, int, bool, std::string, Rcpp::Nullable >, int)’: /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/ClusterR/include/ClusterRHeader.h:862:14: warning: variable ‘status’ set but not used [-Wunused-but-set-variable] 862 | bool status; | ^~~~~~ /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/ClusterR/include/ClusterRHeader.h: In instantiation of ‘T clustR::ClustHeader::GMM_arma_covariance_type(T, arma::mat&, int, std::string, std::string, int, int, bool, double, int) [with T = arma::gmm_priv::gmm_full; arma::mat = arma::Mat; std::string = std::__cxx11::basic_string]’: /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/ClusterR/include/ClusterRHeader.h:1601:70: required from here /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/ClusterR/include/ClusterRHeader.h:1530:14: warning: variable ‘status’ set but not used [-Wunused-but-set-variable] 1530 | bool status; | ^~~~~~ /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/ClusterR/include/ClusterRHeader.h: In instantiation of ‘T clustR::ClustHeader::GMM_arma_covariance_type(T, arma::mat&, int, std::string, std::string, int, int, bool, double, int) [with T = arma::gmm_priv::gmm_diag; arma::mat = arma::Mat; std::string = std::__cxx11::basic_string]’: /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/ClusterR/include/ClusterRHeader.h:1635:70: required from here /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/ClusterR/include/ClusterRHeader.h:1530:14: warning: variable ‘status’ set but not used [-Wunused-but-set-variable] g++ -std=gnu++11 -shared -L/home/biocbuild/R/R-beta-2024-04-15_r86425/lib -L/usr/local/lib -o mbkmeans.so RcppExports.o mini_batch.o -L/home/biocbuild/R/R-beta-2024-04-15_r86425/lib -lR installing to /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/00LOCK-mbkmeans/00new/mbkmeans/libs ** R ** 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 (mbkmeans)