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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/flowSpy_1.4.0.tar.gz && rm -rf flowSpy.buildbin-libdir && mkdir flowSpy.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=flowSpy.buildbin-libdir flowSpy_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL flowSpy_1.4.0.zip && rm flowSpy_1.4.0.tar.gz flowSpy_1.4.0.zip
###
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100 2414k  100 2414k    0     0  55.5M      0 --:--:-- --:--:-- --:--:-- 56.1M

install for i386

* installing *source* package 'flowSpy' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.12-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  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c jaccard_coeff.cpp -o jaccard_coeff.o
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o flowSpy.dll tmp.def RcppExports.o jaccard_coeff.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/flowSpy.buildbin-libdir/00LOCK-flowSpy/00new/flowSpy/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
No methods found in package 'flowCore' for requests: 'action', 'assign', 'Data', 'gate', 'tree' when loading 'flowUtils'
** help
*** installing help indices
  converting help for package 'flowSpy'
    finding HTML links ... done
    FSPY-class                              html  
    Rphenograph                             html  
    buildTree                               html  
    constraintMatrix                        html  
    correctBatchFSPY                        html  
    createFSPY                              html  
    defLeafCells                            html  
    defRootCells                            html  
    fetchCell                               html  
    fetchClustMeta                          html  
    fetchPlotMeta                           html  
    find_neighbors                          html  
    flowSpy-package                         html  
    gatingMatrix                            html  
    plot2D                                  html  
    plot3D                                  html  
    plotBranchHeatmap                       html  
    plotCluster                             html  
    plotClusterHeatmap                      html  
    plotHeatmap                             html  
    plotMarkerDensity                       html  
    plotPieCluster                          html  
    plotPieTree                             html  
    plotPseudotimeDensity                   html  
    plotPseudotimeTraj                      html  
    plotTrajHeatmap                         html  
    plotTree                                html  
    plotViolin                              html  
    processingCluster                       html  
    runClara                                html  
    runCluster                              html  
    runDiff                                 html  
    runDiffusionMap                         html  
    runExprsExtract                         html  
    runExprsMerge                           html  
    runFastPCA                              html  
    runHclust                               html  
    runKNN                                  html  
    runKmeans                               html  
    runMclust                               html  
    runPhenograph                           html  
    runPseudotime                           html  
    runSOM                                  html  
    finding level-2 HTML links ... done

    runTSNE                                 html  
    runUMAP                                 html  
    runWalk                                 html  
    show-FSPY-method                        html  
    subsetFSPY                              html  
    updateClustMeta                         html  
    updatePlotMeta                          html  
** building package indices
** installing vignettes
   'Quick_start.Rmd' using 'UTF-8' 
** testing if installed package can be loaded from temporary location
No methods found in package 'flowCore' for requests: 'action', 'assign', 'Data', 'gate', 'tree' when loading 'flowUtils'
Warning: Package 'flowSpy' is deprecated and will be removed from Bioconductor
  version 3.13
** testing if installed package can be loaded from final location
No methods found in package 'flowCore' for requests: 'action', 'assign', 'Data', 'gate', 'tree' when loading 'flowUtils'
Warning: Package 'flowSpy' is deprecated and will be removed from Bioconductor
  version 3.13
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'flowSpy' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.12-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  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c jaccard_coeff.cpp -o jaccard_coeff.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o flowSpy.dll tmp.def RcppExports.o jaccard_coeff.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/flowSpy.buildbin-libdir/flowSpy/libs/x64
** testing if installed package can be loaded
No methods found in package 'flowCore' for requests: 'action', 'assign', 'Data', 'gate', 'tree' when loading 'flowUtils'
Warning: Package 'flowSpy' is deprecated and will be removed from Bioconductor
  version 3.13
* MD5 sums
packaged installation of 'flowSpy' as flowSpy_1.4.0.zip
* DONE (flowSpy)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'flowSpy' successfully unpacked and MD5 sums checked