Back to Multiple platform build/check report for BioC 3.6
ABCDEFGHI[J]KLMNOPQRSTUVWXYZ

INSTALL report for JunctionSeq on tokay1

This page was generated on 2018-04-12 13:27:20 -0400 (Thu, 12 Apr 2018).

Package 728/1472HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
JunctionSeq 1.8.0
Stephen Hartley
Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018)
URL: https://git.bioconductor.org/packages/JunctionSeq
Branch: RELEASE_3_6
Last Commit: 241230f
Last Changed Date: 2017-10-30 12:41:12 -0400 (Mon, 30 Oct 2017)
malbec1 Linux (Ubuntu 16.04.1 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
veracruz1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: JunctionSeq
Version: 1.8.0
Command: rm -rf JunctionSeq.buildbin-libdir && mkdir JunctionSeq.buildbin-libdir && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/JunctionSeq_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=JunctionSeq.buildbin-libdir --merge-multiarch JunctionSeq_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL JunctionSeq_1.8.0.zip && rm JunctionSeq_1.8.0.tar.gz JunctionSeq_1.8.0.zip
StartedAt: 2018-04-11 18:42:27 -0400 (Wed, 11 Apr 2018)
EndedAt: 2018-04-11 18:44:14 -0400 (Wed, 11 Apr 2018)
EllapsedTime: 107.6 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf JunctionSeq.buildbin-libdir && mkdir JunctionSeq.buildbin-libdir  && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/JunctionSeq_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=JunctionSeq.buildbin-libdir --merge-multiarch JunctionSeq_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL JunctionSeq_1.8.0.zip  && rm JunctionSeq_1.8.0.tar.gz JunctionSeq_1.8.0.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  232k  100  232k    0     0   853k      0 --:--:-- --:--:-- --:--:--  863k

install for i386

* installing *source* package 'JunctionSeq' ...
** libs
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppArmadillo/include"   -I"C:/local323/include"     -O2 -Wall  -mtune=generic -c DESeq2.cpp -o DESeq2.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppArmadillo/include"   -I"C:/local323/include"     -O2 -Wall  -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o JunctionSeq.dll tmp.def DESeq2.o RcppExports.o -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/i386 -lRlapack -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/local323/lib/i386 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.6-bioc/meat/JunctionSeq.buildbin-libdir/JunctionSeq/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'JunctionSeq'
    finding HTML links ... done
    JunctionSeqCountSet-class               html  
    finding level-2 HTML links ... done

    buildAllPlots                           html  
    buildAllPlotsForGene                    html  
    defaultColorList                        html  
    estimateEffectSizes                     html  
    estimateJunctionSeqDispersions          html  
    estimateJunctionSeqSizeFactors          html  
    fitJunctionSeqDispersionFunction        html  
    plotDispEsts                            html  
    plotJunctionSeqResultsForGene           html  
    plotMA                                  html  
    readAnnotationData                      html  
    readJunctionSeqCounts                   html  
    runJunctionSeqAnalyses                  html  
    setJunctionSeqCompiledSourcePackage     html  
    testForDiffUsage                        html  
    writeBedTrack                           html  
    writeCompleteResults                    html  
** building package indices
** installing vignettes
   'JunctionSeq.Rnw' 
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'JunctionSeq' ...
** libs
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppArmadillo/include"   -I"C:/local323/include"     -O2 -Wall  -mtune=generic -c DESeq2.cpp -o DESeq2.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/RcppArmadillo/include"   -I"C:/local323/include"     -O2 -Wall  -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o JunctionSeq.dll tmp.def DESeq2.o RcppExports.o -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/x64 -lRlapack -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/local323/lib/x64 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.6-bioc/meat/JunctionSeq.buildbin-libdir/JunctionSeq/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'JunctionSeq' as JunctionSeq_1.8.0.zip
* DONE (JunctionSeq)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.6-bioc/R/library'
package 'JunctionSeq' successfully unpacked and MD5 sums checked
In R CMD INSTALL