############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD INSTALL sSNAPPY ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.16-bioc/R/site-library’ * installing *source* package ‘sSNAPPY’ ... ** using staged installation ** libs g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.16-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -c GenePertScore.cpp -o GenePertScore.o In file included from /home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include/armadillo:26, from /home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57, from /home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include/RcppArmadillo.h:29, from GenePertScore.cpp:2: /home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:338:86: note: #pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed 338 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:343:75: note: #pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead 343 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:346:61: note: #pragma message: INFO: see the documentation for details 346 | #pragma message ("INFO: see the documentation for details") | ^ g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.16-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.16-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -c code.cpp -o code.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.16-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fpic -g -O2 -Wall -c normaliseByPermutation.cpp -o normaliseByPermutation.o In file included from /home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include/armadillo:26, from /home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57, from /home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include/RcppArmadillo.h:29, from normaliseByPermutation.cpp:2: /home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:338:86: note: #pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed 338 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ /home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:343:75: note: #pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead 343 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ /home/biocbuild/bbs-3.16-bioc/R/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:346:61: note: #pragma message: INFO: see the documentation for details 346 | #pragma message ("INFO: see the documentation for details") | ^ g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.16-bioc/R/lib -L/usr/local/lib -o sSNAPPY.so GenePertScore.o RcppExports.o code.o normaliseByPermutation.o -fopenmp -L/home/biocbuild/bbs-3.16-bioc/R/lib -lRlapack -L/home/biocbuild/bbs-3.16-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.16-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.16-bioc/R/site-library/00LOCK-sSNAPPY/00new/sSNAPPY/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 (sSNAPPY)