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INSTALL report for BSgenome on tokay1

This page was generated on 2018-04-12 13:18:17 -0400 (Thu, 12 Apr 2018).

Package 162/1472HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BSgenome 1.46.0
H. Pagès
Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018)
URL: https://git.bioconductor.org/packages/BSgenome
Branch: RELEASE_3_6
Last Commit: bdfbd6d
Last Changed Date: 2017-10-30 12:39:17 -0400 (Mon, 30 Oct 2017)
malbec1 Linux (Ubuntu 16.04.1 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
veracruz1 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: BSgenome
Version: 1.46.0
Command: rm -rf BSgenome.buildbin-libdir && mkdir BSgenome.buildbin-libdir && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/BSgenome_1.46.0.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=BSgenome.buildbin-libdir --merge-multiarch BSgenome_1.46.0.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL BSgenome_1.46.0.zip && rm BSgenome_1.46.0.tar.gz BSgenome_1.46.0.zip
StartedAt: 2018-04-11 18:47:25 -0400 (Wed, 11 Apr 2018)
EndedAt: 2018-04-11 18:49:37 -0400 (Wed, 11 Apr 2018)
EllapsedTime: 132.6 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   rm -rf BSgenome.buildbin-libdir && mkdir BSgenome.buildbin-libdir  && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/BSgenome_1.46.0.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=BSgenome.buildbin-libdir --merge-multiarch BSgenome_1.46.0.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL BSgenome_1.46.0.zip  && rm BSgenome_1.46.0.tar.gz BSgenome_1.46.0.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
 28 5474k   28 1552k    0     0  9562k      0 --:--:-- --:--:-- --:--:-- 9700k
100 5474k  100 5474k    0     0  24.9M      0 --:--:-- --:--:-- --:--:-- 25.2M

install for i386

* installing *source* package 'BSgenome' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'BSgenome'
    finding HTML links ... done
    BSParams-class                          html  
    finding level-2 HTML links ... done

    BSgenome-class                          html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:46: missing file link 'GenomeDescription'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:47: missing file link 'GenomeDescription'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:58: missing file link 'DNAString'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:59: missing file link 'MaskedDNAString'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:68: missing file link 'length,XVector-method'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:69: missing file link 'length,MaskedXString-method'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:70: missing file link 'DNAString'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:71: missing file link 'MaskedDNAString'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:73: missing file link 'MaskedXString'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:75: missing file link 'MaskedXString'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:83: missing file link 'DNAStringSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:143: missing file link 'BSgenome.Hsapiens.UCSC.hg38'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:155: missing file link 'DNAStringSet-class'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:156: missing file link 'MaskedDNAString-class'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-class.Rd:159: missing file link 'subseq,XVector-method'
    BSgenome-utils                          html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-utils.Rd:46: missing file link 'DNAString'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-utils.Rd:49: missing file link 'DNAStringSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-utils.Rd:108: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-utils.Rd:111: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-utils.Rd:113: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-utils.Rd:121: missing file link 'DataFrame'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenome-utils.Rd:133: missing file link 'matchPDict'
    BSgenomeForge                           html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeForge.Rd:75: missing file link 'XString'
    BSgenomeViews-class                     html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:120: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:135: missing file link 'alphabetFrequency'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:136: missing file link 'oligonucleotideFrequency'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:140: missing file link 'alphabetFrequency'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:144: missing file link 'oligonucleotideFrequency'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:148: missing file link 'consensusMatrix'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:179: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:215: missing file link 'DNAStringSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:241: missing file link 'DNAStringSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:245: missing file link 'DNAStringSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:246: missing file link 'DNAStringSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:249: missing file link 'seqtype'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:250: missing file link 'nchar,XStringSet-method'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:251: missing file link 'unlist,XStringSet-method'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:252: missing file link 'alphabetFrequency'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:253: missing file link 'hasOnlyBaseLetters'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:254: missing file link 'uniqueLetters'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:256: missing file link 'oligonucleotideFrequency'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:257: missing file link 'nucleotideFrequencyAt'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:258: missing file link 'consensusMatrix'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:259: missing file link 'consensusString'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:271: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:274: missing file link 'DNAStringSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/BSgenomeViews-class.Rd:281: missing file link 'TxDb'
    SNPlocs-class                           html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:111: missing file link 'subsetByOverlaps'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:112: missing file link 'subsetByOverlaps'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:113: missing file link 'subsetByOverlaps'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:116: missing file link 'GenomicRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:125: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:125: missing file link 'GPos'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:143: missing file link 'GPos'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:156: missing file link 'GPos'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:161: missing file link 'GPos'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:171: missing file link 'GPos'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:171: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:178: missing file link 'subsetByOverlaps'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:180: missing file link 'subsetByOverlaps'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/SNPlocs-class.Rd:183: missing file link 'GenomicRanges'
    XtraSNPlocs-class                       html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:93: missing file link 'DataFrame'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:94: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:97: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:106: missing file link 'subsetByOverlaps'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:107: missing file link 'subsetByOverlaps'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:108: missing file link 'subsetByOverlaps'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:111: missing file link 'GenomicRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:131: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:133: missing file link 'DataFrame'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:134: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:140: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:146: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:154: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:159: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:163: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:167: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:171: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:178: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:187: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/XtraSNPlocs-class.Rd:199: missing file link 'GRanges'
    available.genomes                       html  
    bsapply                                 html  
    export-methods                          html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/export-methods.Rd:33: missing file link 'FastaFile'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/export-methods.Rd:33: missing file link 'TwoBitFile'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/export-methods.Rd:61: missing file link 'TwoBitFile'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/export-methods.Rd:71: missing file link 'FastaFile'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/export-methods.Rd:71: missing file link 'TwoBitFile'
    getSeq-methods                          html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:15: missing file link 'XStringSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:27: missing file link 'XStringSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:35: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:36: missing file link 'GRangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:37: missing file link 'RangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:38: missing file link 'Ranges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:39: missing file link 'RangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:39: missing file link 'Ranges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:49: missing file link 'XStringSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:50: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:51: missing file link 'GRangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:57: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:58: missing file link 'GRangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:58: missing file link 'RangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:59: missing file link 'Ranges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:64: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:65: missing file link 'GRangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:77: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:78: missing file link 'Ranges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:79: missing file link 'GRangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:80: missing file link 'RangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:87: missing file link 'solveUserSEW'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:91: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:92: missing file link 'GRangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:106: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:107: missing file link 'GRangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:114: missing file link 'XStringSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:115: missing file link 'GenomicRanges-class'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:116: missing file link 'GRangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:125: missing file link 'DNAStringSet'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:130: missing file link 'DNAStringSetList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:131: missing file link 'CharacterList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:133: missing file link 'GRangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:134: missing file link 'DNAString'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:136: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:137: missing file link 'GRangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:137: missing file link 'RangesList'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:138: missing file link 'Ranges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:150: missing file link 'MaskedDNAString-class'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:161: missing file link 'DNAStringSet-class'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/getSeq-methods.Rd:162: missing file link 'MaskedDNAString-class'
    injectSNPs                              html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/injectSNPs.Rd:105: missing file link 'letterFrequencyInSlidingView'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpmSznHY/R.INSTALLbc02e399c5/BSgenome/man/injectSNPs.Rd:106: missing file link '.inplaceReplaceLetterAt'
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'BSgenome' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'BSgenome' as BSgenome_1.46.0.zip
* DONE (BSgenome)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.6-bioc/R/library'
package 'BSgenome' successfully unpacked and MD5 sums checked
In R CMD INSTALL