Back to Multiple platform build/check report for BioC 3.8
AB[C]DEFGHIJKLMNOPQRSTUVWXYZ

INSTALL report for CrispRVariants on tokay1

This page was generated on 2019-04-13 11:26:10 -0400 (Sat, 13 Apr 2019).

Package 346/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CrispRVariants 1.10.1
Helen Lindsay
Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019)
URL: https://git.bioconductor.org/packages/CrispRVariants
Branch: RELEASE_3_8
Last Commit: 8269b06
Last Changed Date: 2019-01-04 13:27:32 -0400 (Fri, 04 Jan 2019)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: CrispRVariants
Version: 1.10.1
Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/CrispRVariants_1.10.1.tar.gz && rm -rf CrispRVariants.buildbin-libdir && mkdir CrispRVariants.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CrispRVariants.buildbin-libdir CrispRVariants_1.10.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL CrispRVariants_1.10.1.zip && rm CrispRVariants_1.10.1.tar.gz CrispRVariants_1.10.1.zip
StartedAt: 2019-04-12 19:41:56 -0400 (Fri, 12 Apr 2019)
EndedAt: 2019-04-12 19:43:27 -0400 (Fri, 12 Apr 2019)
EllapsedTime: 90.6 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/CrispRVariants_1.10.1.tar.gz && rm -rf CrispRVariants.buildbin-libdir && mkdir CrispRVariants.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CrispRVariants.buildbin-libdir CrispRVariants_1.10.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL CrispRVariants_1.10.1.zip && rm CrispRVariants_1.10.1.tar.gz CrispRVariants_1.10.1.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 1395k  100 1395k    0     0  15.8M      0 --:--:-- --:--:-- --:--:-- 16.6M

install for i386

* installing *source* package 'CrispRVariants' ...
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'CrispRVariants'
    finding HTML links ... done
    CrisprRun-class                         html  
    CrisprSet-class                         html  
    abifToFastq                             html  
    addClipped                              html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpGSJe3f/R.INSTALL2c45eb74981/CrispRVariants/man/addClipped.Rd:19: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
    addCodonFrame                           html  
    alleleLabelsHelpers                     html  
    alleles                                 html  
    alns                                    html  
    annotateGenePlot                        html  
    arrangePlots                            html  
    barplotAlleleFreqs                      html  
    collapsePairs                           html  
    consensusSeqs                           html  
    dispatchDots                            html  
    excludeFromBam                          html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpGSJe3f/R.INSTALL2c45eb74981/CrispRVariants/man/excludeFromBam.Rd:12: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
    explodeCigarOpCombs                     html  
    findChimeras                            html  
    findSNVs                                html  
    getAxisCoords                           html  
    getChimeras                             html  
    getInsertionsTable                      html  
    gol_clutch1                             html  
    indelCounts                             html  
    indelLabels                             html  
    intersperse                             html  
    makeAlignmentTilePlot                   html  
    mergeChimeras                           html  
    mergeCrisprSets                         html  
    mismatchLabels                          html  
    mutationEfficiency                      html  
    narrowAlignments                        html  
    plotAlignments                          html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpGSJe3f/R.INSTALL2c45eb74981/CrispRVariants/man/plotAlignments.Rd:131: file link 'CrisprSet' in package 'CrispRVariants' does not exist and so has been treated as a topic
    plotChimeras                            html  
    plotFreqHeatmap                         html  
    plotVariants                            html  
    rcAlns                                  html  
    readTargetBam                           html  
    readsByPCRPrimer                        html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpGSJe3f/R.INSTALL2c45eb74981/CrispRVariants/man/readsByPCRPrimer.Rd:32: file link 'findOverlaps' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpGSJe3f/R.INSTALL2c45eb74981/CrispRVariants/man/readsByPCRPrimer.Rd:33: file link 'disjoin' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpGSJe3f/R.INSTALL2c45eb74981/CrispRVariants/man/readsByPCRPrimer.Rd:43: file link 'Hits' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpGSJe3f/R.INSTALL2c45eb74981/CrispRVariants/man/readsByPCRPrimer.Rd:57: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpGSJe3f/R.INSTALL2c45eb74981/CrispRVariants/man/readsByPCRPrimer.Rd:57: file link 'GAlignments' in package 'GenomicAlignments' does not exist and so has been treated as a topic
    readsToTarget                           html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpGSJe3f/R.INSTALL2c45eb74981/CrispRVariants/man/readsToTarget.Rd:111: file link 'findOverlaps' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpGSJe3f/R.INSTALL2c45eb74981/CrispRVariants/man/readsToTarget.Rd:114: file link 'bpparam' in package 'BiocParallel' does not exist and so has been treated as a topic
    refFromAlns                             html  
    reverseCigar                            html  
    rmMultiPCRChimera                       html  
    selectAlnRegionsHelpers                 html  
    selectOps                               html  
    seqsToAln                               html  
    setDNATileColours                       html  
    setMismatchTileColours                  html  
    transformAlnsToLong                     html  
    variantCounts                           html  
    writeFastq                              html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'CrispRVariants' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CrispRVariants' as CrispRVariants_1.10.1.zip
* DONE (CrispRVariants)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'CrispRVariants' successfully unpacked and MD5 sums checked
In R CMD INSTALL