############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL cytolib ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’ * installing *source* package ‘cytolib’ ... ** using staged installation checking for a sed that does not truncate output... /usr/bin/sed checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether g++ -std=gnu++17 accepts -g... yes checking how to run the C++ preprocessor... g++ -std=gnu++17 -E checking whether we are using the GNU C++ compiler... (cached) yes checking whether g++ -std=gnu++17 accepts -g... (cached) yes configure: Parsing cytolib version info ... configure: CYTOLIB_VERSION=2.16.0 configure: creating ./config.status config.status: creating inst/include/cytolib/cytolibConfig.h config.status: creating src/Makevars ** libs using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ using C++11 g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c dummy.cpp -o dummy.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c boost/libs/system/src/error_code.cpp -o boost/libs/system/src/error_code.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c boost/libs/filesystem/src/codecvt_error_category.cpp -o boost/libs/filesystem/src/codecvt_error_category.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c boost/libs/filesystem/src/directory.cpp -o boost/libs/filesystem/src/directory.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c boost/libs/filesystem/src/exception.cpp -o boost/libs/filesystem/src/exception.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c boost/libs/filesystem/src/operations.cpp -o boost/libs/filesystem/src/operations.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c boost/libs/filesystem/src/path.cpp -o boost/libs/filesystem/src/path.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c boost/libs/filesystem/src/path_traits.cpp -o boost/libs/filesystem/src/path_traits.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c boost/libs/filesystem/src/portability.cpp -o boost/libs/filesystem/src/portability.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c boost/libs/filesystem/src/unique_path.cpp -o boost/libs/filesystem/src/unique_path.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c boost/libs/filesystem/src/utf8_codecvt_facet.cpp -o boost/libs/filesystem/src/utf8_codecvt_facet.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c boost/libs/filesystem/src/windows_file_codecvt.cpp -o boost/libs/filesystem/src/windows_file_codecvt.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c calibrationTable.cpp -o calibrationTable.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c compensation.cpp -o compensation.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c CytoFrame.cpp -o CytoFrame.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c CytoFrameView.cpp -o CytoFrameView.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c CytoVFS.cpp -o CytoVFS.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c ellipse2points.cpp -o ellipse2points.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c gate.cpp -o gate.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c GatingHierarchy.cpp -o GatingHierarchy.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c GatingSet.cpp -o GatingSet.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c global.cpp -o global.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c H5CytoFrame.cpp -o H5CytoFrame.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c in_polygon.cpp -o in_polygon.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c MemCytoFrame.cpp -o MemCytoFrame.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c nodeProperties.cpp -o nodeProperties.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c POPINDICES.cpp -o POPINDICES.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c spline.cpp -o spline.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c transformation.cpp -o transformation.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RProtoBufLib/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include -fpic -g -O2 -Wall -c trans_group.cpp -o trans_group.o mkdir -p "/home/biocbuild/bbs-3.19-bioc/R/site-library/00LOCK-cytolib/00new/cytolib/lib" ar rs "/home/biocbuild/bbs-3.19-bioc/R/site-library/00LOCK-cytolib/00new/cytolib/lib/libcytolib.a" calibrationTable.o compensation.o CytoFrame.o CytoFrameView.o CytoVFS.o dummy.o ellipse2points.o gate.o GatingHierarchy.o GatingSet.o global.o H5CytoFrame.o in_polygon.o MemCytoFrame.o nodeProperties.o POPINDICES.o spline.o transformation.o trans_group.o boost/libs/filesystem/src/codecvt_error_category.o boost/libs/filesystem/src/directory.o boost/libs/filesystem/src/exception.o boost/libs/filesystem/src/operations.o boost/libs/filesystem/src/path.o boost/libs/filesystem/src/path_traits.o boost/libs/filesystem/src/portability.o boost/libs/filesystem/src/unique_path.o boost/libs/filesystem/src/utf8_codecvt_facet.o boost/libs/filesystem/src/windows_file_codecvt.o boost/libs/system/src/error_code.o ar: creating /home/biocbuild/bbs-3.19-bioc/R/site-library/00LOCK-cytolib/00new/cytolib/lib/libcytolib.a g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.19-bioc/R/lib -L/usr/local/lib -o cytolib.so dummy.o -L/home/biocbuild/bbs-3.19-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.19-bioc/R/site-library/00LOCK-cytolib/00new/cytolib/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 (cytolib)