##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/Harman_1.22.0.tar.gz && rm -rf Harman.buildbin-libdir && mkdir Harman.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Harman.buildbin-libdir Harman_1.22.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL Harman_1.22.0.zip && rm Harman_1.22.0.tar.gz Harman_1.22.0.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  151k  100  151k    0     0   571k      0 --:--:-- --:--:-- --:--:--  574k

install for i386

* installing *source* package 'Harman' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -D_ARRAYALIGNEMT=4  -D_USE_RCPP=1  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"  -I"C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include" -std=c++0x    -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c Harman.cpp -o Harman.o
Harman.cpp: In function 'SEXPREC* HarmanMain(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
Harman.cpp:3008:3: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
   else
   ^~~~
Harman.cpp:3022:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
     std::vector<unsigned int>    tr_std_tmp     = Rcpp::as<std::vector<unsigned int> >(tr) ;
     ^~~
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o Harman.dll tmp.def Harman.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/Harman.buildbin-libdir/00LOCK-Harman/00new/Harman/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'Harman'
    finding HTML links ... done
    arrowPlot                               html  
    callHarman                              html  
    detachHarman                            html  
    harman                                  html  
    harmanScores                            html  
    harmanresults                           html  
    pcaPlot                                 html  
    plot.harmanresults                      html  
    prcompPlot                              html  
    print.summary.harmanresults             html  
    reconstructData                         html  
    shiftBetas                              html  
    summary.harmanresults                   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 'Harman' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -D_ARRAYALIGNEMT=4  -D_USE_RCPP=1  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"  -I"C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include" -std=c++0x    -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c Harman.cpp -o Harman.o
Harman.cpp: In function 'SEXPREC* HarmanMain(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
Harman.cpp:3008:3: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
   else
   ^~~~
Harman.cpp:3022:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
     std::vector<unsigned int>    tr_std_tmp     = Rcpp::as<std::vector<unsigned int> >(tr) ;
     ^~~
In file included from Harman.cpp:182:
CSelectRandom.h: In instantiation of 'std::vector<unsigned int>* CSelectRandom<T>::ReturnVectOf32bitIntegersInRange_CSTDLIB(size_t, size_t, size_t, size_t) [with T = double; size_t = long long unsigned int]':
Harman.cpp:1764:117:   required from here
CSelectRandom.h:943:20: warning: comparison of integer expressions of different signedness: 'long long int' and 'size_t' {aka 'long long unsigned int'} [-Wsign-compare]
     while (currval < howManyIN)
            ~~~~~~~~^~~~~~~~~~~
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o Harman.dll tmp.def Harman.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/Harman.buildbin-libdir/Harman/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Harman' as Harman_1.22.0.zip
* DONE (Harman)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'Harman' successfully unpacked and MD5 sums checked