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### Running command:
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###   D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL FunChIP
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* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'FunChIP' ...
** using staged installation
** libs
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I../inst/include -I. -DNDEBUG -I'D:/biocbuild/bbs-3.15-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c kmean_function.cpp -o kmean_function.o
kmean_function.cpp: In function 'SEXPREC* kmean_function(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
kmean_function.cpp:74:31: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
     for (unsigned int i =0 ; i<num_data; i++){
                              ~^~~~~~~~~
kmean_function.cpp:80:34: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
       for (unsigned int t =0 ; t < num_points; t++)
                                ~~^~~~~~~~~~~~
kmean_function.cpp: In function 'SEXPREC* distance_matrix(SEXP, SEXP, SEXP, SEXP, SEXP)':
kmean_function.cpp:210:35: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
         for (unsigned int i =0 ; i<num_data; i++){
                                  ~^~~~~~~~~
kmean_function.cpp:216:40: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
             for (unsigned int t =0 ; t < num_points; t++)
                                      ~~^~~~~~~~~~~~
kmean_function.cpp: In function 'void kma_discrete(std::vector<peak>&, const int&, std::vector<int>&, const double&, const double&, const int&, const char&, const double&, const double&, std::vector<int>&, std::vector<double>&, std::vector<int>&, const double&, const double&, int, char, char)':
kmean_function.cpp:638:51: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<peak>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
   while( iter < iter_max and number_distances_low < dati.size()  and cluster_vuoti==0){  //and number_clusters_different > 0
                              ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~
kmean_function.cpp:677:52: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
       if ( (unsigned int)number_clusters_different == dati.size() & iter != 1)
            ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~
kmean_function.cpp:681:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<peak>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
       if (number_distances_low== dati.size())
           ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~
kmean_function.cpp: In function 'void normalize_data(std::vector<int>&, std::vector<int>&, const int&)':
kmean_function.cpp:759:27: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'const int' [-Wsign-compare]
   for (unsigned int i=0; i<n_clust; i++)
                          ~^~~~~~~~
In file included from kmean_function.cpp:1:
peak.h: In member function 'std::vector<double> peak::area(int, char) const':
peak.h:154:46: warning: 'D' may be used uninitialized in this function [-Wmaybe-uninitialized]
                 area_def[0] = sqrt(area[0]/2)/D;
                               ~~~~~~~~~~~~~~~^~
C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o FunChIP.dll tmp.def kmean_function.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-FunChIP/00new/FunChIP/libs/x64
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'FunChIP'
    finding HTML links ... done
    FunChIP-package                         html  
    GR100                                   html  
    finding level-2 HTML links ... done

    bending_index                           html  
    choose_k-method                         html  
    cluster_peak-method                     html  
    compute_fragments_length                html  
    distance_peak                           html  
    peaks                                   html  
    pileup_peak-method                      html  
    plot_peak-method                        html  
    silhouette_plot                         html  
    smooth_peak-method                      html  
    summit_peak-method                      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 (FunChIP)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
  DESCRIPTION file of package 'MLInterfaces' is missing or broken
Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
  DESCRIPTION file of package 'RandomWalkRestartMH' is missing or broken
 done