netReg 1.6.0
Simon Dirmeier
| Snapshot Date: 2019-04-15 17:01:12 -0400 (Mon, 15 Apr 2019) |
| URL: https://git.bioconductor.org/packages/netReg |
| Branch: RELEASE_3_8 |
| Last Commit: 5019b18 |
| Last Changed Date: 2018-10-30 11:42:04 -0400 (Tue, 30 Oct 2018) |
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | [ OK ] | OK | OK | |  |
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
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### Running command:
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### /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL netReg
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* installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’
* installing *source* package ‘netReg’ ...
configure: R home found in /home/biocbuild/bbs-3.8-bioc/R
configure: setting CXX to g++ -std=gnu++11
checking whether configure should try to set CXXFLAGS... no
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++11 accepts -g... yes
checking for a sed that does not truncate output... /bin/sed
checking for ranlib... ranlib
checking for library containing cblas_dgemm... no
configure: using rblas
checking whether g++ -std=gnu++11 supports C++11 features by default... yes
checking for g++ -std=gnu++11 option to support OpenMP... -fopenmp
configure: creating ./config.status
config.status: creating src/Makevars
config.status: creating src/config.h
Have fun with: netReg
CXX: g++ -std=gnu++11
CXXFLAGS: -g -O2
CPPFLAGS: -I/usr/local/include
** libs
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -DUSE_RCPPARMADILLO -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include -g -O2 -fopenmp -fpic -g -O2 -Wall -c cv_set.cpp -o cv_set.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -DUSE_RCPPARMADILLO -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include -g -O2 -fopenmp -fpic -g -O2 -Wall -c data_factory.cpp -o data_factory.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -DUSE_RCPPARMADILLO -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include -g -O2 -fopenmp -fpic -g -O2 -Wall -c edgenet.cpp -o edgenet.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -DUSE_RCPPARMADILLO -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include -g -O2 -fopenmp -fpic -g -O2 -Wall -c edgenet_model_selection.cpp -o edgenet_model_selection.o
In file included from ../inst/include/dlib/matrix/../serialize.h:157:0,
from ../inst/include/dlib/matrix/matrix.h:9,
from ../inst/include/dlib/matrix.h:6,
from cross_validation.hpp:43,
from edgenet_model_selection.hpp:32,
from edgenet_model_selection.cpp:25:
../inst/include/dlib/matrix/../smart_pointers/shared_ptr.h:299:18: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
std::auto_ptr<Y>& r
^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
from /usr/include/c++/5/locale:43,
from /usr/include/c++/5/iomanip:43,
from /home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include/RcppCommon.h:52,
from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:26,
from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
from model_data.hpp:34,
from graph_model_data.hpp:28,
from graph_model_cv_data.hpp:28,
from edgenet_model_selection.hpp:31,
from edgenet_model_selection.cpp:25:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
template<typename> class auto_ptr;
^
In file included from ../inst/include/dlib/matrix/../serialize.h:157:0,
from ../inst/include/dlib/matrix/matrix.h:9,
from ../inst/include/dlib/matrix.h:6,
from cross_validation.hpp:43,
from edgenet_model_selection.hpp:32,
from edgenet_model_selection.cpp:25:
../inst/include/dlib/matrix/../smart_pointers/shared_ptr.h:331:18: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
std::auto_ptr<Y>& r
^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
from /usr/include/c++/5/locale:43,
from /usr/include/c++/5/iomanip:43,
from /home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include/RcppCommon.h:52,
from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:26,
from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
from model_data.hpp:34,
from graph_model_data.hpp:28,
from graph_model_cv_data.hpp:28,
from edgenet_model_selection.hpp:31,
from edgenet_model_selection.cpp:25:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
template<typename> class auto_ptr;
^
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -DUSE_RCPPARMADILLO -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include -g -O2 -fopenmp -fpic -g -O2 -Wall -c edgenet_wrapper.cpp -o edgenet_wrapper.o
In file included from ../inst/include/dlib/matrix/../serialize.h:157:0,
from ../inst/include/dlib/matrix/matrix.h:9,
from ../inst/include/dlib/matrix.h:6,
from cross_validation.hpp:43,
from edgenet_model_selection.hpp:32,
from edgenet_wrapper.cpp:33:
../inst/include/dlib/matrix/../smart_pointers/shared_ptr.h:299:18: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
std::auto_ptr<Y>& r
^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
from /usr/include/c++/5/locale:43,
from /usr/include/c++/5/iomanip:43,
from /home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include/RcppCommon.h:52,
from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:26,
from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
from model_data.hpp:34,
from graph_model_data.hpp:28,
from edgenet_wrapper.hpp:29,
from edgenet_wrapper.cpp:31:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
template<typename> class auto_ptr;
^
In file included from ../inst/include/dlib/matrix/../serialize.h:157:0,
from ../inst/include/dlib/matrix/matrix.h:9,
from ../inst/include/dlib/matrix.h:6,
from cross_validation.hpp:43,
from edgenet_model_selection.hpp:32,
from edgenet_wrapper.cpp:33:
../inst/include/dlib/matrix/../smart_pointers/shared_ptr.h:331:18: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
std::auto_ptr<Y>& r
^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
from /usr/include/c++/5/locale:43,
from /usr/include/c++/5/iomanip:43,
from /home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include/RcppCommon.h:52,
from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:26,
from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
from model_data.hpp:34,
from graph_model_data.hpp:28,
from edgenet_wrapper.hpp:29,
from edgenet_wrapper.cpp:31:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
template<typename> class auto_ptr;
^
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -DUSE_RCPPARMADILLO -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include -g -O2 -fopenmp -fpic -g -O2 -Wall -c graph_functions.cpp -o graph_functions.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -DUSE_RCPPARMADILLO -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include -g -O2 -fopenmp -fpic -g -O2 -Wall -c graph_model_cv_data.cpp -o graph_model_cv_data.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -DUSE_RCPPARMADILLO -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include -g -O2 -fopenmp -fpic -g -O2 -Wall -c netReg_wrapper.cpp -o netReg_wrapper.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -DUSE_RCPPARMADILLO -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include -g -O2 -fopenmp -fpic -g -O2 -Wall -c stat_functions.cpp -o stat_functions.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -DUSE_RCPPARMADILLO -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include -g -O2 -fopenmp -fpic -g -O2 -Wall -c vector_functions.cpp -o vector_functions.o
g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.8-bioc/R/lib -L/usr/local/lib -o netReg.so cv_set.o data_factory.o edgenet.o edgenet_model_selection.o edgenet_wrapper.o graph_functions.o graph_model_cv_data.o netReg_wrapper.o stat_functions.o vector_functions.o -fopenmp -L/home/biocbuild/bbs-3.8-bioc/R/lib -lRblas -L/home/biocbuild/bbs-3.8-bioc/R/lib -lRlapack -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.8-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.8-bioc/R/library/netReg/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
* DONE (netReg)