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### Running command:
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###   /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL SingleR
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* installing to library ‘/home/biocbuild/bbs-3.11-bioc/R/library’
* installing *source* package ‘SingleR’ ...
** using staged installation
** libs
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I/usr/local/include   -fpic  -g -O2  -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I/usr/local/include   -fpic  -g -O2  -Wall -c fine_tune_de.cpp -o fine_tune_de.o
fine_tune_de.cpp: In constructor ‘de_markers::de_markers(Rcpp::List)’:
fine_tune_de.cpp:6:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for (size_t i=0; i<marker_genes.size(); ++i) {
                          ~^~~~~~~~~~~~~~~~~~~~
fine_tune_de.cpp:9:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
             for (size_t j=0; j<internals.size(); ++j) {
                              ~^~~~~~~~~~~~~~~~~
fine_tune_de.cpp: In function ‘Rcpp::List fine_tune_label_de(SEXP, Rcpp::NumericMatrix, Rcpp::List, double, double, Rcpp::List)’:
fine_tune_de.cpp:41:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (size_t i=0; i<References.size(); ++i) {
                      ~^~~~~~~~~~~~~~~~~~
In file included from fine_tune_de.cpp:2:0:
fine_tuner.h: In instantiation of ‘tuned_stats fine_tuner::assign(int, beachmat::numeric_matrix*, Rcpp::NumericMatrix, const matrix_list&, double, double, const PICKER&) [with PICKER = de_markers; tuned_stats = std::tuple<int, double, double>; beachmat::numeric_matrix = beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; Rcpp::NumericMatrix = Rcpp::Matrix<14>; matrix_list = std::vector<std::unique_ptr<beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> > > >]’:
fine_tune_de.cpp:54:95:   required from here
fine_tuner.h:40:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for (size_t i=0; i<cur_scores.size(); ++i) {
                          ~^~~~~~~~~~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I/usr/local/include   -fpic  -g -O2  -Wall -c fine_tune_sd.cpp -o fine_tune_sd.o
fine_tune_sd.cpp: In function ‘Rcpp::List fine_tune_label_sd(SEXP, Rcpp::NumericMatrix, Rcpp::List, double, double, Rcpp::NumericMatrix, double)’:
fine_tune_sd.cpp:46:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (size_t i=0; i<References.size(); ++i) {
                      ~^~~~~~~~~~~~~~~~~~
In file included from fine_tune_sd.cpp:2:0:
fine_tuner.h: In instantiation of ‘tuned_stats fine_tuner::assign(int, beachmat::numeric_matrix*, Rcpp::NumericMatrix, const matrix_list&, double, double, const PICKER&) [with PICKER = sd_markers; tuned_stats = std::tuple<int, double, double>; beachmat::numeric_matrix = beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> >; Rcpp::NumericMatrix = Rcpp::Matrix<14>; matrix_list = std::vector<std::unique_ptr<beachmat::lin_matrix<double, Rcpp::Vector<14, Rcpp::PreserveStorage> > > >]’:
fine_tune_sd.cpp:59:95:   required from here
fine_tuner.h:40:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
         for (size_t i=0; i<cur_scores.size(); ++i) {
                          ~^~~~~~~~~~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/beachmat/include' -I/usr/local/include   -fpic  -g -O2  -Wall -c recompute_scores.cpp -o recompute_scores.o
recompute_scores.cpp: In function ‘Rcpp::RObject recompute_scores(Rcpp::List, Rcpp::RObject, Rcpp::IntegerMatrix, Rcpp::List, Rcpp::List, double)’:
recompute_scores.cpp:38:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     if (Labels.nrow()!=nref) {
         ~~~~~~~~~~~~~^~~~~~
recompute_scores.cpp:41:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     if (Labels.ncol()!=ncells) {
         ~~~~~~~~~~~~~^~~~~~~~
recompute_scores.cpp:45:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     if (Genes.size()!=nref) {
         ~~~~~~~~~~~~^~~~~~
g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.11-bioc/R/lib -L/usr/local/lib -o SingleR.so RcppExports.o fine_tune_de.o fine_tune_sd.o recompute_scores.o -L/home/biocbuild/bbs-3.11-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.11-bioc/R/library/00LOCK-SingleR/00new/SingleR/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 (SingleR)