############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/Rqc_1.28.0.tar.gz && rm -rf Rqc.buildbin-libdir && mkdir Rqc.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Rqc.buildbin-libdir Rqc_1.28.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL Rqc_1.28.0.zip && rm Rqc_1.28.0.tar.gz Rqc_1.28.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 54831 100 54831 0 0 349k 0 --:--:-- --:--:-- --:--:-- 352k install for i386 * installing *source* package 'Rqc' ... ** 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:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RRDNA.cpp -o RRDNA.o RRDNA.cpp: In function 'Rcpp::StringVector toRRDNA(Rcpp::StringVector)': RRDNA.cpp:51:27: warning: comparison of integer expressions of different signedness: 'R_len_t' {aka 'int'} and 'std::__cxx11::basic_string::size_type' {aka 'unsigned int'} [-Wsign-compare] for (j = 0; j < dna.size(); j+=3) ~~^~~~~~~~~~~~ RRDNA.cpp: In function 'Rcpp::StringVector fromRRDNA(Rcpp::StringVector)': RRDNA.cpp:102:22: warning: comparison of integer expressions of different signedness: 'R_len_t' {aka 'int'} and 'std::__cxx11::basic_string::size_type' {aka 'unsigned int'} [-Wsign-compare] for(j = 1; j < rrdna.size(); ++j) { ~~^~~~~~~~~~~~~~ "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:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o Rqc.dll tmp.def RRDNA.o RcppExports.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/Rqc.buildbin-libdir/00LOCK-Rqc/00new/Rqc/libs/i386 ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'Rqc' finding HTML links ... done Rqc-package html RqcResultSet-class html checkpoint html detectFileFormat html fromRRDNA html matdist html rqc html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/Rqc.buildbin-libdir/00LOCK-Rqc/00new/Rqc/help/rqc.html finding level-2 HTML links ... done rqcCycleAverageQualityPcaPlot html rqcCycleAverageQualityPlot html rqcCycleBaseCallsPlot html rqcCycleGCPlot html rqcCycleQualityBoxPlot html rqcCycleQualityPlot html rqcFileHeatmap html rqcGroupCycleAverageQualityPlot html rqcQA html rqcReadFrequencyPlot html rqcReadQualityBoxPlot html rqcReadQualityPlot html rqcReadWidthPlot html rqcReport html rqcShinyReport html stats4trim html subsetByGroup html subsetByPair html toRRDNA 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 'Rqc' ... ** 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:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RRDNA.cpp -o RRDNA.o RRDNA.cpp: In function 'Rcpp::StringVector toRRDNA(Rcpp::StringVector)': RRDNA.cpp:51:27: warning: comparison of integer expressions of different signedness: 'R_len_t' {aka 'int'} and 'std::__cxx11::basic_string::size_type' {aka 'long long unsigned int'} [-Wsign-compare] for (j = 0; j < dna.size(); j+=3) ~~^~~~~~~~~~~~ RRDNA.cpp: In function 'Rcpp::StringVector fromRRDNA(Rcpp::StringVector)': RRDNA.cpp:102:22: warning: comparison of integer expressions of different signedness: 'R_len_t' {aka 'int'} and 'std::__cxx11::basic_string::size_type' {aka 'long long unsigned int'} [-Wsign-compare] for(j = 1; j < rrdna.size(); ++j) { ~~^~~~~~~~~~~~~~ "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:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o Rqc.dll tmp.def RRDNA.o RcppExports.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/Rqc.buildbin-libdir/Rqc/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'Rqc' as Rqc_1.28.0.zip * DONE (Rqc) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'Rqc' successfully unpacked and MD5 sums checked