Back to Multiple platform build/check report for BioC 3.9
ABCDE[F]GHIJKLMNOPQRSTUVWXYZ

INSTALL report for FunChIP on tokay2

This page was generated on 2019-04-09 12:26:42 -0400 (Tue, 09 Apr 2019).

Package 585/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
FunChIP 1.9.0
Alice Parodi
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/FunChIP
Branch: master
Last Commit: d611387
Last Changed Date: 2018-10-30 11:54:36 -0400 (Tue, 30 Oct 2018)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK 

Summary

Package: FunChIP
Version: 1.9.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/FunChIP_1.9.0.tar.gz && rm -rf FunChIP.buildbin-libdir && mkdir FunChIP.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=FunChIP.buildbin-libdir FunChIP_1.9.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL FunChIP_1.9.0.zip && rm FunChIP_1.9.0.tar.gz FunChIP_1.9.0.zip
StartedAt: 2019-04-08 19:47:31 -0400 (Mon, 08 Apr 2019)
EndedAt: 2019-04-08 19:48:56 -0400 (Mon, 08 Apr 2019)
EllapsedTime: 84.9 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/FunChIP_1.9.0.tar.gz && rm -rf FunChIP.buildbin-libdir && mkdir FunChIP.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=FunChIP.buildbin-libdir FunChIP_1.9.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL FunChIP_1.9.0.zip && rm FunChIP_1.9.0.tar.gz FunChIP_1.9.0.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 22.0M  100 22.0M    0     0  74.1M      0 --:--:-- --:--:-- --:--:-- 75.8M

install for i386

* installing *source* package 'FunChIP' ...
** libs
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I../inst/include -I. -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -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 between signed and unsigned integer expressions [-Wsign-compare]
     for (unsigned int i =0 ; i<num_data; i++){
                               ^
kmean_function.cpp:80:34: warning: comparison between signed and unsigned integer expressions [-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 between signed and unsigned integer expressions [-Wsign-compare]
         for (unsigned int i =0 ; i<num_data; i++){
                                   ^
kmean_function.cpp:216:40: warning: comparison between signed and unsigned integer expressions [-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 between signed and unsigned integer expressions [-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 between signed and unsigned integer expressions [-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 between signed and unsigned integer expressions [-Wsign-compare]
   for (unsigned int i=0; i<n_clust; i++)
                           ^
In file included from kmean_function.cpp:1:0:
peak.h: In member function 'std::vector<double> peak::area(int, char) const':
peak.h:184:38: warning: 'D' may be used uninitialized in this function [-Wmaybe-uninitialized]
                 area_def[0] = area[0]/D;
                                      ^
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o FunChIP.dll tmp.def kmean_function.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/FunChIP.buildbin-libdir/00LOCK-FunChIP/00new/FunChIP/libs/i386
** 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

install for x64

* installing *source* package 'FunChIP' ...
** libs
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I../inst/include -I. -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -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 between signed and unsigned integer expressions [-Wsign-compare]
     for (unsigned int i =0 ; i<num_data; i++){
                               ^
kmean_function.cpp:80:34: warning: comparison between signed and unsigned integer expressions [-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 between signed and unsigned integer expressions [-Wsign-compare]
         for (unsigned int i =0 ; i<num_data; i++){
                                   ^
kmean_function.cpp:216:40: warning: comparison between signed and unsigned integer expressions [-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 between signed and unsigned integer expressions [-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 between signed and unsigned integer expressions [-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 between signed and unsigned integer expressions [-Wsign-compare]
   for (unsigned int i=0; i<n_clust; i++)
                           ^
In file included from kmean_function.cpp:1:0:
peak.h: In member function 'std::vector<double> peak::area(int, char) const':
peak.h:184:38: warning: 'D' may be used uninitialized in this function [-Wmaybe-uninitialized]
                 area_def[0] = area[0]/D;
                                      ^
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o FunChIP.dll tmp.def kmean_function.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/FunChIP.buildbin-libdir/FunChIP/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'FunChIP' as FunChIP_1.9.0.zip
* DONE (FunChIP)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'FunChIP' successfully unpacked and MD5 sums checked