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INSTALL report for GGtools on tokay2

This page was generated on 2018-10-17 08:32:57 -0400 (Wed, 17 Oct 2018).

Package 615/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GGtools 5.16.0
VJ Carey
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/GGtools
Branch: RELEASE_3_7
Last Commit: fa78de3
Last Changed Date: 2018-04-30 10:35:05 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK 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
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: GGtools
Version: 5.16.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/GGtools_5.16.0.tar.gz && rm -rf GGtools.buildbin-libdir && mkdir GGtools.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GGtools.buildbin-libdir GGtools_5.16.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL GGtools_5.16.0.zip && rm GGtools_5.16.0.tar.gz GGtools_5.16.0.zip
StartedAt: 2018-10-16 20:34:38 -0400 (Tue, 16 Oct 2018)
EndedAt: 2018-10-16 20:38:06 -0400 (Tue, 16 Oct 2018)
EllapsedTime: 208.3 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/GGtools_5.16.0.tar.gz && rm -rf GGtools.buildbin-libdir && mkdir GGtools.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GGtools.buildbin-libdir GGtools_5.16.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL GGtools_5.16.0.zip && rm GGtools_5.16.0.tar.gz GGtools_5.16.0.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
 95 69.2M   95 65.9M    0     0  89.1M      0 --:--:-- --:--:-- --:--:-- 89.7M
100 69.2M  100 69.2M    0     0  89.5M      0 --:--:-- --:--:-- --:--:-- 90.1M

install for i386

* installing *source* package 'GGtools' ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'GGtools'
    finding HTML links ... done
    All.cis                                 html  
    CisConfig-class                         html  
    finding level-2 HTML links ... done

Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/CisConfig-class.Rd:115: file link 'getSS' in package 'GGBase' does not exist and so has been treated as a topic
    EqAppr-class                            html  
    GGtools-package                         html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/GGtools-package.Rd:68: file link 'getSS' in package 'GGBase' does not exist and so has been treated as a topic
    TransConfig-class                       html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/TransConfig-class.Rd:42: file link 'getSS' in package 'GGBase' does not exist and so has been treated as a topic
    appraise                                html  
    b1                                      html  
    best.cis.eQTLs                          html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/best.cis.eQTLs.Rd:95: file link 'getSS' in package 'GGBase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/best.cis.eQTLs.Rd:136: file link 'snplocs' in package 'BSgenome' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/best.cis.eQTLs.Rd:196: file link 'getSS' in package 'GGBase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/best.cis.eQTLs.Rd:200: file link 'getSS' in package 'GGBase' does not exist and so has been treated as a topic
    best.trans.eQTLs                        html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/best.trans.eQTLs.Rd:21: file link 'getSS' in package 'GGBase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/best.trans.eQTLs.Rd:41: file link 'ffrowapply' in package 'ff' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/best.trans.eQTLs.Rd:65: file link 'snplocs' in package 'BSgenome' does not exist and so has been treated as a topic
    bindmaf                                 html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/bindmaf.Rd:24: file link 'getSS' in package 'GGBase' does not exist and so has been treated as a topic
    cgff2dt                                 html  
    cisAssoc                                html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/cisAssoc.Rd:26: file link 'TabixFile' in package 'Rsamtools' does not exist and so has been treated as a topic
    cisRun-class                            html  
    ciseqByCluster                          html  
    collectBest                             html  
    concatCis                               html  
    eqBox                                   html  
    eqsens_dt                               html  
    eqtlTests                               html  
    eqtlTests.me                            html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/eqtlTests.me.Rd:49: file link 'mclapply' in package 'parallel' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/eqtlTests.me.Rd:84: file link 'regressOut' in package 'GGBase' does not exist and so has been treated as a topic
    eqtlTestsManager-class                  html  
    ex                                      html  
    getCisMap                               html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/getCisMap.Rd:31: file link 'snplocs' in package 'BSgenome' does not exist and so has been treated as a topic
    gffprocess                              html  
    gwSnpTests                              html  
    hmm878                                  html  
    pifdr                                   html  
    qqhex                                   html  
    richNull                                html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/richNull.Rd:33: file link 'getSS' in package 'GGBase' does not exist and so has been treated as a topic
    sampsInVCF                              html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/sampsInVCF.Rd:17: file link 'TabixFile' in package 'Rsamtools' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/sampsInVCF.Rd:39: file link 'TabixFile' in package 'Rsamtools' does not exist and so has been treated as a topic
    scoresCis                               html  
    sensanal                                html  
    sensiCisInput-class                     html  
    sensiCisOutput-class                    html  
    simpleTiling                            html  
    snplocsDefault                          html  
    strMultPop                              html  
    transManager-class                      html  
    transScores                             html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/transScores.Rd:85: file link 'getSS' in package 'GGBase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/transScores.Rd:88: file link 'getSS' in package 'GGBase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpsHdkeo/R.INSTALL220c78402fba/GGtools/man/transScores.Rd:91: file link 'ffrowapply' in package 'ff' does not exist and so has been treated as a topic
    transTab                                html  
    transeqByCluster                        html  
    vcf2sm                                  html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'GGtools' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GGtools' as GGtools_5.16.0.zip
* DONE (GGtools)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'GGtools' successfully unpacked and MD5 sums checked
In R CMD INSTALL