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###
### Running command:
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###   D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL Cardinal
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* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'Cardinal' ...
** using staged installation
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c DIP.cpp -o DIP.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c dynAlign.cpp -o dynAlign.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c imzML.cpp -o imzML.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c init.cpp -o init.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c pugixml.cpp -o pugixml.o
pugixml.cpp:2264:16: warning: 'void pugi::impl::{anonymous}::as_utf8_end(char*, size_t, const wchar_t*, size_t)' defined but not used [-Wunused-function]
  PUGI__FN void as_utf8_end(char* buffer, size_t size, const wchar_t* str, size_t length)
                ^~~~~~~~~~~
pugixml.cpp:2258:18: warning: 'size_t pugi::impl::{anonymous}::as_utf8_begin(const wchar_t*, size_t)' defined but not used [-Wunused-function]
  PUGI__FN size_t as_utf8_begin(const wchar_t* str, size_t length)
                  ^~~~~~~~~~~~~
pugixml.cpp:221:18: warning: 'size_t pugi::impl::{anonymous}::strlength_wide(const wchar_t*)' defined but not used [-Wunused-function]
  PUGI__FN size_t strlength_wide(const wchar_t* s)
                  ^~~~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c spatial.cpp -o spatial.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c utils.cpp -o utils.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o Cardinal.dll tmp.def DIP.o dynAlign.o imzML.o init.o pugixml.o spatial.o utils.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lR
installing to D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-Cardinal/00new/Cardinal/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'Cardinal'
    finding HTML links ... done
    AnnotatedImage-class                    html  
    finding level-2 HTML links ... done

    AnnotatedImagingExperiment-class        html  
    Cardinal-package                        html  
    ImageList-class                         html  
    ImagingExperiment-class                 html  
    ImagingResult-class                     html  
    MSContinuousImagingExperiment-class     html  
    MSImagingExperiment-class               html  
    MSImagingInfo-class                     html  
    MSProcessedImagingExperiment-class      html  
    MassDataFrame-class                     html  
    PCA-methods                             html  
    PLS-methods                             html  
    PositionDataFrame-class                 html  
    SparseImagingExperiment-class           html  
    XDataFrame-class                        html  
    aggregate-methods                       html  
    colocalized-methods                     html  
    colors-functions                        html  
    crossValidate-methods                   html  
    defunct                                 html  
    deprecated                              html  
    findNeighbors-methods                   html  
    image-methods                           html  
    internal                                html  
    legacy                                  html  
REDIRECT:topic	 Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-Cardinal/00new/Cardinal/help/ImageData.html
    meansTest-methods                       html  
    mz-methods                              html  
    mzAlign-methods                         html  
    mzBin-methods                           html  
    mzFilter-methods                        html  
    normalize-methods                       html  
    peakAlign-methods                       html  
    peakBin-methods                         html  
    peakPick-methods                        html  
    pixelApply-methods                      html  
    plot-methods                            html  
    process-methods                         html  
    readMSIData                             html  
    reduceBaseline-methods                  html  
    reexports                               html  
    selectROI-methods                       html  
    simulateSpectrum                        html  
    slice-methods                           html  
    smoothSignal-methods                    html  
    spatialDGMM-methods                     html  
    spatialFastmap-methods                  html  
    spatialKMeans-methods                   html  
    spatialShrunkenCentroids-methods        html  
    subset-methods                          html  
    topFeatures-methods                     html  
    writeMSIData                            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
* DONE (Cardinal)
Making 'packages.html' ... done