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###
### Running command:
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###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/Rqc_1.26.0.tar.gz && rm -rf Rqc.buildbin-libdir && mkdir Rqc.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Rqc.buildbin-libdir Rqc_1.26.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL Rqc_1.26.0.zip && rm Rqc_1.26.0.tar.gz Rqc_1.26.0.zip
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100 56017  100 56017    0     0   356k      0 --:--:-- --:--:-- --:--:--  359k

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-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-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<char>::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<char>::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-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-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-3~1.13-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.13-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-3.13-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-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-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<char>::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<char>::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-3~1.13-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.13-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-3~1.13-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/Rqc.buildbin-libdir/Rqc/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Rqc' as Rqc_1.26.0.zip
* DONE (Rqc)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'Rqc' successfully unpacked and MD5 sums checked