Package: esATAC

Version: 1.8.0

Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe --arch x64 CMD INSTALL --no-multiarch esATAC

StartedAt: 2020-04-14 20:27:56 -0400 (Tue, 14 Apr 2020)

EndedAt: 2020-04-14 20:31:13 -0400 (Tue, 14 Apr 2020)

EllapsedTime: 197.0 seconds

RetCode: 0

Status:  OK

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### Running command:
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###   C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe --arch x64 CMD INSTALL --no-multiarch esATAC
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* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
* installing *source* package 'esATAC' ...
** using staged installation
** libs
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DNDEBUG -DPLF_SYS_WIN -DR_EVN_FLAG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c BedLine.cpp -o BedLine.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DNDEBUG -DPLF_SYS_WIN -DR_EVN_FLAG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c BedUtils.cpp -o BedUtils.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DNDEBUG -DPLF_SYS_WIN -DR_EVN_FLAG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c ChrDivi.cpp -o ChrDivi.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DNDEBUG -DPLF_SYS_WIN -DR_EVN_FLAG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c CutCountPre.cpp -o CutCountPre.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DNDEBUG -DPLF_SYS_WIN -DR_EVN_FLAG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c CutSiteCount.cpp -o CutSiteCount.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DNDEBUG -DPLF_SYS_WIN -DR_EVN_FLAG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c LibComplexQC.cpp -o LibComplexQC.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DNDEBUG -DPLF_SYS_WIN -DR_EVN_FLAG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DNDEBUG -DPLF_SYS_WIN -DR_EVN_FLAG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c SortBed.cpp -o SortBed.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DNDEBUG -DPLF_SYS_WIN -DR_EVN_FLAG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c rcpp_wrapper.cpp -o rcpp_wrapper.o
rcpp_wrapper.cpp: In function 'int CutSiteCount_wrapper(Rcpp::List)':
rcpp_wrapper.cpp:334:7: warning: variable 'tmp_k' set but not used [-Wunused-but-set-variable]
   int tmp_k;
       ^
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DNDEBUG -DPLF_SYS_WIN -DR_EVN_FLAG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c renamer.cpp -o renamer.o
C:/Rtools/mingw_64/bin/g++  -std=gnu++11 -I"C:/Users/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -DNDEBUG -DPLF_SYS_WIN -DR_EVN_FLAG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c sam2bed.cc -o sam2bed.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o esATAC.dll tmp.def BedLine.o BedUtils.o ChrDivi.o CutCountPre.o CutSiteCount.o LibComplexQC.o RcppExports.o SortBed.o rcpp_wrapper.o renamer.o sam2bed.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/biocbuild/bbs-3.10-bioc/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/R/library/00LOCK-esATAC/00new/esATAC/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
No methods found in package 'IRanges' for request: 'score' when loading 'TFBSTools'
** help
*** installing help indices
  converting help for package 'esATAC'
    finding HTML links ... done
    ATACProc-class                          html  
    BamToBed                                html  
    BedToBigWig                             html  
    BedUtils                                html  
    Bowtie2Mapping                          html  
    finding level-2 HTML links ... done

    CutSiteCountR                           html  
    CutSitePre                              html  
    FastQC                                  html  
    FragLenDistr                            html  
    FripQC                                  html  
    LibComplexQC                            html  
    PeakCallingFseq                         html  
    PeakQC                                  html  
    RGo                                     html  
    RMotifScan                              html  
    RMotifScanPair                          html  
    RPeakAnno                               html  
    RPeakComp                               html  
    RSNPs                                   html  
    RemoveAdapter                           html  
    Renamer                                 html  
    Rsortbam                                html  
    SamToBam                                html  
    SamToBed                                html  
    TSSQC                                   html  
    UnzipAndMerge                           html  
    atacPipe2                               html  
    atacRepsPipe                            html  
    atacRepsPipe2                           html  
    configureValue                          html  
    esATAC-package                          html  
    getMotifInfo                            html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
No methods found in package 'IRanges' for request: 'score' when loading 'TFBSTools'
** testing if installed package can be loaded from final location
No methods found in package 'IRanges' for request: 'score' when loading 'TFBSTools'
** testing if installed package keeps a record of temporary installation path
* DONE (esATAC)
Making 'packages.html' ... done