##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL flowWorkspace
###
##############################################################################
##############################################################################


* installing to library ‘/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library’
* installing *source* package ‘flowWorkspace’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
using C++17
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/BH/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/RProtoBufLib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cytolib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c R_API.cpp -o R_API.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/BH/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/RProtoBufLib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cytolib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c R_GatingHierarchy.cpp -o R_GatingHierarchy.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/BH/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/RProtoBufLib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cytolib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c R_GatingSet.cpp -o R_GatingSet.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/BH/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/RProtoBufLib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cytolib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c cpp11.cpp -o cpp11.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/BH/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/RProtoBufLib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cytolib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c cytoframeAPI.cpp -o cytoframeAPI.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/BH/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/RProtoBufLib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cytolib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c cytosetAPI.cpp -o cytosetAPI.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/BH/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/RProtoBufLib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cytolib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c getDescendants.cpp -o getDescendants.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/BH/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/RProtoBufLib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cytolib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c getPopStats.cpp -o getPopStats.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/BH/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/RProtoBufLib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cytolib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c getSingleCellExpression.cpp -o getSingleCellExpression.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/BH/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/RProtoBufLib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cytolib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c h5_error_r_handler.cpp -o h5_error_r_handler.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -DROUT -I../inst/include -DBOOST_NO_AUTO_PTR -Wno-pedantic  -w -Wfatal-errors -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cpp11/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/BH/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/RProtoBufLib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cytolib/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c setCounts.cpp -o setCounts.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.20-bioc/R/lib -L/usr/local/lib -o flowWorkspace.so R_API.o R_GatingHierarchy.o R_GatingSet.o cpp11.o cytoframeAPI.o cytosetAPI.o getDescendants.o getPopStats.o getSingleCellExpression.o h5_error_r_handler.o setCounts.o /media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/cytolib/lib/libcytolib.a /media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/lib/libhdf5_cpp.a /media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/lib/libhdf5.a -L/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rhdf5lib/lib -lcrypto -lcurl -lsz -laec -lz -ldl -lm -llapack -L/home/biocbuild/bbs-3.20-bioc/R/lib -lRblas -L/home/biocbuild/bbs-3.20-bioc/R/lib -lR
installing to /media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/00LOCK-flowWorkspace/00new/flowWorkspace/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 (flowWorkspace)