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INSTALL report for GenomicTuples on tokay1

This page was generated on 2019-04-13 11:24:30 -0400 (Sat, 13 Apr 2019).

Package 630/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GenomicTuples 1.16.0
Peter Hickey
Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019)
URL: https://git.bioconductor.org/packages/GenomicTuples
Branch: RELEASE_3_8
Last Commit: 3a2cd2b
Last Changed Date: 2018-10-30 11:41:55 -0400 (Tue, 30 Oct 2018)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64  OK  OK  OK 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  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: GenomicTuples
Version: 1.16.0
Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/GenomicTuples_1.16.0.tar.gz && rm -rf GenomicTuples.buildbin-libdir && mkdir GenomicTuples.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GenomicTuples.buildbin-libdir GenomicTuples_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL GenomicTuples_1.16.0.zip && rm GenomicTuples_1.16.0.tar.gz GenomicTuples_1.16.0.zip
StartedAt: 2019-04-12 19:34:10 -0400 (Fri, 12 Apr 2019)
EndedAt: 2019-04-12 19:35:06 -0400 (Fri, 12 Apr 2019)
EllapsedTime: 56.0 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/GenomicTuples_1.16.0.tar.gz && rm -rf GenomicTuples.buildbin-libdir && mkdir GenomicTuples.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GenomicTuples.buildbin-libdir GenomicTuples_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL GenomicTuples_1.16.0.zip && rm GenomicTuples_1.16.0.tar.gz GenomicTuples_1.16.0.zip
###
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install for i386

* installing *source* package 'GenomicTuples' ...
** libs
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c IPD.cpp -o IPD.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c allTuplesSorted.cpp -o allTuplesSorted.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c pcompareGTuples.cpp -o pcompareGTuples.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o GenomicTuples.dll tmp.def IPD.o RcppExports.o allTuplesSorted.o pcompareGTuples.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/GenomicTuples.buildbin-libdir/GenomicTuples/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'GenomicTuples'
    finding HTML links ... done
    GTuples-class                           html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:75: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:82: file link 'Rle' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:86: file link 'IRanges' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:91: file link 'Rle' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:94: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:101: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:109: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:132: file link 'Rle' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:139: file link 'Rle' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:151: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:214: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:238: file link 'Rle' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:267: file link 'Rle' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:275: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:278: file link 'DataTable' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:291: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:300: file link 'seqlevels' in package 'GenomeInfoDb' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:401: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:402: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:430: file link 'Rle' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:509: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:512: file link 'IRanges' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:513: file link 'GenomicRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:515: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:533: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:534: file link 'GAlignments' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:535: file link 'GAlignmentPairs' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:538: file link 'IRanges' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:538: file link 'DNAStringSet' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-class.Rd:551: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
    GTuples-comparison                      html  
    finding level-2 HTML links ... done

Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuples-comparison.Rd:165: file link 'Hits' in package 'S4Vectors' does not exist and so has been treated as a topic
    GTuplesList-class                       html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:62: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:100: file link 'RleList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:101: file link 'RleList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:101: file link 'CharacterList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:107: file link 'SimpleList' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:113: file link 'CompressedIRangesList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:114: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:124: file link 'RleList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:125: file link 'RleList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:126: file link 'CharacterList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:129: file link 'RleList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:130: file link 'CharacterList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:136: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:156: file link 'seqlevels' in package 'GenomeInfoDb' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:216: file link 'SimpleList' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:252: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/GTuplesList-class.Rd:409: file link 'RleList-class' in package 'IRanges' does not exist and so has been treated as a topic
    GenomicTuples-package                   html  
    findOverlaps-methods                    html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:27: file link 'findOverlaps' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:29: file link 'GenomicRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:29: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:60: file link 'findOverlaps' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:65: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:112: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:113: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:119: file link 'findOverlaps,GRangesList,GRangesList-method' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:132: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:133: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:147: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:172: file link 'findOverlaps' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/findOverlaps-methods.Rd:173: file link 'findOverlaps' in package 'IRanges' does not exist and so has been treated as a topic
    illdefined-methods                      html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/illdefined-methods.Rd:56: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/illdefined-methods.Rd:57: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
    intra-tuple-methods                     html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/intra-tuple-methods.Rd:43: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
    nearest-methods                         html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/nearest-methods.Rd:26: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/nearest-methods.Rd:70: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/nearest-methods.Rd:72: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/nearest-methods.Rd:147: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/nearest-methods.Rd:150: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/nearest-methods.Rd:165: file link 'GenomicRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/nearest-methods.Rd:166: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/nearest-methods.Rd:167: file link 'IPosRanges' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/nearest-methods.Rd:168: file link 'Hits' in package 'S4Vectors' does not exist and so has been treated as a topic
    tuples-squeezers                        html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/tuples-squeezers.Rd:13: 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/RtmpWMVYz6/R.INSTALL1f2046435140/GenomicTuples/man/tuples-squeezers.Rd:14: file link 'grglist' in package 'GenomicRanges' does not exist and so has been treated as a topic
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'GenomicTuples' ...
** libs
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c IPD.cpp -o IPD.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c allTuplesSorted.cpp -o allTuplesSorted.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c pcompareGTuples.cpp -o pcompareGTuples.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o GenomicTuples.dll tmp.def IPD.o RcppExports.o allTuplesSorted.o pcompareGTuples.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/GenomicTuples.buildbin-libdir/GenomicTuples/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GenomicTuples' as GenomicTuples_1.16.0.zip
* DONE (GenomicTuples)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'GenomicTuples' successfully unpacked and MD5 sums checked
In R CMD INSTALL