Back to Multiple platform build/check report for BioC 3.9
ABCDEFGHI[J]KLMNOPQRSTUVWXYZ

INSTALL report for JunctionSeq on tokay2

This page was generated on 2019-10-16 12:34:45 -0400 (Wed, 16 Oct 2019).

Package 850/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
JunctionSeq 1.14.0
Stephen Hartley
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/JunctionSeq
Branch: RELEASE_3_9
Last Commit: ea9dcd8
Last Changed Date: 2019-05-02 11:53:59 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: JunctionSeq
Version: 1.14.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/JunctionSeq_1.14.0.tar.gz && rm -rf JunctionSeq.buildbin-libdir && mkdir JunctionSeq.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=JunctionSeq.buildbin-libdir JunctionSeq_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL JunctionSeq_1.14.0.zip && rm JunctionSeq_1.14.0.tar.gz JunctionSeq_1.14.0.zip
StartedAt: 2019-10-15 20:11:19 -0400 (Tue, 15 Oct 2019)
EndedAt: 2019-10-15 20:13:02 -0400 (Tue, 15 Oct 2019)
EllapsedTime: 102.8 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/JunctionSeq_1.14.0.tar.gz && rm -rf JunctionSeq.buildbin-libdir && mkdir JunctionSeq.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=JunctionSeq.buildbin-libdir JunctionSeq_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL JunctionSeq_1.14.0.zip && rm JunctionSeq_1.14.0.tar.gz JunctionSeq_1.14.0.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  233k  100  233k    0     0  2229k      0 --:--:-- --:--:-- --:--:-- 2381k

install for i386

* installing *source* package 'JunctionSeq' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c DESeq2.cpp -o DESeq2.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include"   -I"C:/extsoft/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-3~1.9-B/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -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/JunctionSeq.buildbin-libdir/00LOCK-JunctionSeq/00new/JunctionSeq/libs/i386
** R
** inst
** byte-compile and prepare 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 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 'JunctionSeq' ...
** libs
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c DESeq2.cpp -o DESeq2.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include"   -I"C:/extsoft/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-3~1.9-B/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -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/JunctionSeq.buildbin-libdir/JunctionSeq/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'JunctionSeq' as JunctionSeq_1.14.0.zip
* DONE (JunctionSeq)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'JunctionSeq' successfully unpacked and MD5 sums checked