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INSTALL report for genomation on tokay2

This page was generated on 2020-10-17 11:56:39 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE genomation PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 702/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
genomation 1.20.0
Altuna Akalin , Vedran Franke
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/genomation
Branch: RELEASE_3_11
Last Commit: 31de677
Last Changed Date: 2020-04-27 14:45:32 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 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
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: genomation
Version: 1.20.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/genomation_1.20.0.tar.gz && rm -rf genomation.buildbin-libdir && mkdir genomation.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=genomation.buildbin-libdir genomation_1.20.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL genomation_1.20.0.zip && rm genomation_1.20.0.tar.gz genomation_1.20.0.zip
StartedAt: 2020-10-16 18:46:17 -0400 (Fri, 16 Oct 2020)
EndedAt: 2020-10-16 18:48:42 -0400 (Fri, 16 Oct 2020)
EllapsedTime: 145.1 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/genomation_1.20.0.tar.gz && rm -rf genomation.buildbin-libdir && mkdir genomation.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=genomation.buildbin-libdir genomation_1.20.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL genomation_1.20.0.zip && rm genomation_1.20.0.tar.gz genomation_1.20.0.zip
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
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  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 6173k  100 6173k    0     0  45.4M      0 --:--:-- --:--:-- --:--:-- 47.8M

install for i386

* installing *source* package 'genomation' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c binSum.cpp -o binSum.o
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o genomation.dll tmp.def RcppExports.o binSum.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/genomation.buildbin-libdir/00LOCK-genomation/00new/genomation/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'genomation'
    finding HTML links ... done
    AnnotationByFeature-class               html  
    AnnotationByGeneParts-class             html  
    AnnotationByGeneParts-methods           html  
    Max_c                                   html  
    Mean_c                                  html  
    Median_c                                html  
    Min_c                                   html  
    Ops-ScoreMatrix-ScoreMatrix-method      html  
    Ops-ScoreMatrixList-ScoreMatrixList-method
                                            html  
    Ops-ScoreMatrixList-numeric-method      html  
    Ops-numeric-ScoreMatrixList-method      html  
    RandomEnrichment-class                  html  
    ScoreMatrix-class                       html  
    ScoreMatrix-methods                     html  
    ScoreMatrixBin-methods                  html  
    ScoreMatrixList-class                   html  
    ScoreMatrixList-methods                 html  
    Sum_c                                   html  
    annotatGrWithGeneParts                  html  
    annotateWithFeature-methods             html  
    annotateWithFeatureFlank-methods        html  
    annotateWithFeatures-methods            html  
    annotateWithGeneParts-methods           html  
    finding level-2 HTML links ... done

    bed12ToExons                            html  
    bed12ToIntrons                          html  
    binMatrix-methods                       html  
    binMax                                  html  
    binMean                                 html  
    binMedian                               html  
    binMin                                  html  
    binSum                                  html  
    binner                                  html  
    c.ScoreMatrix                           html  
    c.ScoreMatrixList                       html  
    cage                                    html  
    calculateOverlapSignificance-methods    html  
    checkBedValidity                        html  
    checkClass                              html  
    compressedAndUrl2temp                   html  
    constrainRanges                         html  
    convertBed2Exons-methods                html  
    convertBed2Introns-methods              html  
    convertBedDf-methods                    html  
    cpgi                                    html  
    detectUCSCheader                        html  
    distance2NearestFeature                 html  
    enrichmentMatrix-ScoreMatrix-method     html  
    enrichmentMatrix-ScoreMatrixList-ScoreMatrix-method
                                            html  
    enrichmentMatrix-ScoreMatrixList-method
                                            html  
    file.ext                                html  
    findFeatureComb-methods                 html  
    galpTo2Ranges                           html  
    genes                                   html  
    getColors                               html  
    getFeatsWithTargetsStats-methods        html  
    getFlanks-methods                       html  
    getMembers-methods                      html  
    getRandomEnrichment-methods             html  
    getTargetAnnotationStats-methods        html  
    gffToGRanges                            html  
    heatMatrix                              html  
    heatMeta                                html  
    heatTargetAnnotation-methods            html  
    intersectScoreMatrixList-methods        html  
    listSliceMax                            html  
    listSliceMean                           html  
    listSliceMedian                         html  
    listSliceMin                            html  
    listSliceSum                            html  
    multiHeatMatrix                         html  
    orderBy-methods                         html  
    patternMatrix-methods                   html  
    plotMeta                                html  
    plotTargetAnnotation-methods            html  
    promoters                               html  
    randomizeFeature-methods                html  
    read.zip                                html  
    readBam                                 html  
    readBed                                 html  
    readBigWig                              html  
    readBroadPeak                           html  
    readFeatureFlank-methods                html  
    readGeneric                             html  
    readNarrowPeak                          html  
    readTableFast                           html  
    readTranscriptFeatures-methods          html  
    scaleScoreMatrix-methods                html  
    scaleScoreMatrixList                    html  
    show-methods                            html  
    sub-ScoreMatrix-ANY-ANY-ANY-method      html  
    sub-ScoreMatrixList-ANY-ANY-ANY-method
                                            html  
    target.type                             html  
** building package indices
** installing vignettes
   'GenomationManual.Rmd' using 'UTF-8' 
** 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 'genomation' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c binSum.cpp -o binSum.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o genomation.dll tmp.def RcppExports.o binSum.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/genomation.buildbin-libdir/genomation/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'genomation' as genomation_1.20.0.zip
* DONE (genomation)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'genomation' successfully unpacked and MD5 sums checked