############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/PCAtools_2.6.0.tar.gz && rm -rf PCAtools.buildbin-libdir && mkdir PCAtools.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PCAtools.buildbin-libdir PCAtools_2.6.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL PCAtools_2.6.0.zip && rm PCAtools_2.6.0.tar.gz PCAtools_2.6.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 1 5545k 1 97009 0 0 497k 0 0:00:11 --:--:-- 0:00:11 498k 34 5545k 34 1924k 0 0 1620k 0 0:00:03 0:00:01 0:00:02 1621k 84 5545k 84 4693k 0 0 2140k 0 0:00:02 0:00:02 --:--:-- 2140k 100 5545k 100 5545k 0 0 2292k 0 0:00:02 0:00:02 --:--:-- 2292k install for i386 * installing *source* package 'PCAtools' ... ** using staged installation ** libs "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c shuffle_matrix.cpp -o shuffle_matrix.o In file included from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/arg.hpp:25, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/iterator/iterator_concepts.hpp:10, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/range/concepts.hpp:20, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/range/size_type.hpp:20, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/range/size.hpp:21, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/random/hyperexponential_distribution.hpp:29, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/random.hpp:70, from shuffle_matrix.cpp:4: C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses] failed ************ (Pred::************ ^ C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses] failed ************ (boost::mpl::not_::************ ^ C:/rtools40/mingw32/bin/g++ -shared -s -static-libgcc -o PCAtools.dll tmp.def RcppExports.o shuffle_matrix.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/PCAtools.buildbin-libdir/00LOCK-PCAtools/00new/PCAtools/libs/i386 ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'PCAtools' finding HTML links ... done biplot html finding level-2 HTML links ... done chooseGavishDonoho html chooseMarchenkoPastur html eigencorplot html findElbowPoint html getComponents html getLoadings html getVars html pairsplot html parallelPCA html pca html plotloadings html screeplot html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'PCAtools' ... ** libs "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/beachmat/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/dqrng/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c shuffle_matrix.cpp -o shuffle_matrix.o In file included from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/arg.hpp:25, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/iterator/iterator_concepts.hpp:10, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/range/concepts.hpp:20, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/range/size_type.hpp:20, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/range/size.hpp:21, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/random/hyperexponential_distribution.hpp:29, from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/random.hpp:70, from shuffle_matrix.cpp:4: C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses] failed ************ (Pred::************ ^ C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses] failed ************ (boost::mpl::not_::************ ^ C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o PCAtools.dll tmp.def RcppExports.o shuffle_matrix.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/PCAtools.buildbin-libdir/PCAtools/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'PCAtools' as PCAtools_2.6.0.zip * DONE (PCAtools) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'PCAtools' successfully unpacked and MD5 sums checked