############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD INSTALL openCyto ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library’ * installing *source* package ‘openCyto’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (GCC) 10.3.1’ using C++17 g++ -std=gnu++17 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/cpp11/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Hungarian.cpp -o Hungarian.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/cpp11/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c cpp11.cpp -o cpp11.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/cpp11/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c misc.cpp -o misc.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/cpp11/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c rlm.cpp -o rlm.o In file included from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/mpl/arg.hpp:25, from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/mpl/placeholders.hpp:24, from /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/accumulators/statistics/median.hpp:11, from rlm.cpp:8: /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^ /home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^ rlm.cpp: In function ‘cpp11::list rlm_cpp(cpp11::doubles_matrix<>, cpp11::doubles, int)’: rlm.cpp:55:10: warning: ‘scale’ may be used uninitialized in this function [-Wmaybe-uninitialized] 55 | double scale; | ^~~~~ g++ -std=gnu++17 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/cpp11/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c solve_LSAP.cpp -o solve_LSAP.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/cpp11/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c unlockNamespace.cpp -o unlockNamespace.o g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-beta-2024-04-15_r86425/lib -L/usr/local/lib -o openCyto.so Hungarian.o cpp11.o misc.o rlm.o solve_LSAP.o unlockNamespace.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-openCyto/00new/openCyto/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 (openCyto)