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BUILD BIN report for methimpute on tokay1

This page was generated on 2019-04-13 11:28:25 -0400 (Sat, 13 Apr 2019).

Package 930/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
methimpute 1.4.1
Aaron Taudt
Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019)
URL: https://git.bioconductor.org/packages/methimpute
Branch: RELEASE_3_8
Last Commit: 5eb3531
Last Changed Date: 2019-01-04 13:38:55 -0400 (Fri, 04 Jan 2019)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: methimpute
Version: 1.4.1
Command: rm -rf methimpute.buildbin-libdir && mkdir methimpute.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=methimpute.buildbin-libdir methimpute_1.4.1.tar.gz
StartedAt: 2019-04-13 07:38:09 -0400 (Sat, 13 Apr 2019)
EndedAt: 2019-04-13 07:39:29 -0400 (Sat, 13 Apr 2019)
EllapsedTime: 80.5 seconds
RetCode: 0
Status:  OK  
PackageFile: methimpute_1.4.1.zip
PackageFileSize: 2.156 MiB

Command output

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### Running command:
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###   rm -rf methimpute.buildbin-libdir && mkdir methimpute.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=methimpute.buildbin-libdir methimpute_1.4.1.tar.gz
###
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install for i386

* installing *source* package 'methimpute' ...
** libs
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c densities.cpp -o densities.o
densities.cpp: In member function 'virtual void BinomialTestContext::calc_densities(Rcpp::Matrix<14>::Row&)':
densities.cpp:614:138: warning: 'prob_context' may be used uninitialized in this function [-Wmaybe-uninitialized]
    if (verbosity >= 4) Rprintf("obs_test[t=%d] = %d, obs_total[t] = %d, prob_context = %g\n", t, obs_test[t], obs_total[t], prob_context);
                                                                                                                                          ^
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c fitHMM.cpp -o fitHMM.o
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c fitHMM_context.cpp -o fitHMM_context.o
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c hmm_context.cpp -o hmm_context.o
hmm_context.cpp: In destructor 'HMM_context::˜HMM_context()':
hmm_context.cpp:68:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for (int i=0; i<this->emissionDensities.size(); i++)
                 ^
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c methimpute_init.c -o methimpute_init.o
C:/Rtools/mingw_32/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c scalehmm.cpp -o scalehmm.o
scalehmm.cpp: In destructor 'ScaleHMM::˜ScaleHMM()':
scalehmm.cpp:311:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for (int i=0; i<this->emissionDensities.size(); i++)
                 ^
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o methimpute.dll tmp.def RcppExports.o densities.o fitHMM.o fitHMM_context.o hmm_context.o methimpute_init.o scalehmm.o -fopenmp -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/methimpute.buildbin-libdir/methimpute/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'methimpute'
    finding HTML links ... done
    arabidopsis_TEs                         html  
    arabidopsis_chromosomes                 html  
    arabidopsis_genes                       html  
    arabidopsis_toydata                     html  
    binning                                 html  
    binomialTestMethylation                 html  
    callMethylation                         html  
    callMethylationSeparate                 html  
    collapseBins                            html  
    distanceCorrelation                     html  
    estimateTransDist                       html  
    exportMethylome                         html  
    extractCytosinesFromFASTA               html  
    finding level-2 HTML links ... done

    getDistinctColors                       html  
    getPosteriors                           html  
    getStateColors                          html  
    import                                  html  
    importRene                              html  
    inflateMethylome                        html  
    loadFromFiles                           html  
    methimpute-objects                      html  
    methimpute-package                      html  
    methimputeBinomialHMM                   html  
    methimputeData                          html  
    parameterScan                           html  
    plotting                                html  
    print.methimputeBinomialHMM             html  
    transCoord                              html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'methimpute' ...
** libs
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c densities.cpp -o densities.o
densities.cpp: In member function 'virtual void BinomialTestContext::calc_densities(Rcpp::Matrix<14>::Row&)':
densities.cpp:614:138: warning: 'prob_context' may be used uninitialized in this function [-Wmaybe-uninitialized]
    if (verbosity >= 4) Rprintf("obs_test[t=%d] = %d, obs_total[t] = %d, prob_context = %g\n", t, obs_test[t], obs_total[t], prob_context);
                                                                                                                                          ^
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c fitHMM.cpp -o fitHMM.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c fitHMM_context.cpp -o fitHMM_context.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c hmm_context.cpp -o hmm_context.o
hmm_context.cpp: In destructor 'HMM_context::˜HMM_context()':
hmm_context.cpp:68:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for (int i=0; i<this->emissionDensities.size(); i++)
                 ^
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c methimpute_init.c -o methimpute_init.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c scalehmm.cpp -o scalehmm.o
scalehmm.cpp: In destructor 'ScaleHMM::˜ScaleHMM()':
scalehmm.cpp:311:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for (int i=0; i<this->emissionDensities.size(); i++)
                 ^
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o methimpute.dll tmp.def RcppExports.o densities.o fitHMM.o fitHMM_context.o hmm_context.o methimpute_init.o scalehmm.o -fopenmp -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/methimpute.buildbin-libdir/methimpute/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'methimpute' as methimpute_1.4.1.zip
* DONE (methimpute)
In R CMD INSTALL
In R CMD INSTALL