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CHECK report for S4Vectors on tokay1

This page was generated on 2021-05-06 12:33:24 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the S4Vectors package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1608/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
S4Vectors 0.28.1  (landing page)
Bioconductor Package Maintainer
Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021)
URL: https://git.bioconductor.org/packages/S4Vectors
Branch: RELEASE_3_12
Last Commit: 994cb7e
Last Changed Date: 2020-12-08 20:04:32 -0400 (Tue, 08 Dec 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version exists in internal repository
tokay1Windows Server 2012 R2 Standard / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version exists in internal repository
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version exists in internal repository

Summary

Package: S4Vectors
Version: 0.28.1
Command: C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:S4Vectors.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings S4Vectors_0.28.1.tar.gz
StartedAt: 2021-05-06 06:33:46 -0400 (Thu, 06 May 2021)
EndedAt: 2021-05-06 06:36:52 -0400 (Thu, 06 May 2021)
EllapsedTime: 185.9 seconds
RetCode: 0
Status:   WARNINGS   
CheckDir: S4Vectors.Rcheck
Warnings: 3

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:S4Vectors.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings S4Vectors_0.28.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/S4Vectors.Rcheck'
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'S4Vectors/DESCRIPTION' ... OK
* this is package 'S4Vectors' version '0.28.1'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'S4Vectors' can be installed ... WARNING
Found the following significant warnings:
  LLint_class.c:358:24: warning: too many arguments for format [-Wformat-extra-args]
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/DataFrame-utils.Rd:44: file link 'SplitDataFrameList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/DataFrame-utils.Rd:76: file link 'is.na' in package 'base' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/DataFrame-utils.Rd:122: file link 'SplitDataFrameList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Factor-class.Rd:173: file link 'GRangesFactor' in package 'GenomicRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Factor-class.Rd:223: file link 'GRangesFactor' in package 'GenomicRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Factor-class.Rd:226: file link 'IRanges' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Factor-class.Rd:230: file link 'anyDuplicated' in package 'BiocGenerics' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Hits-class.Rd:95: file link 'findOverlaps' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Hits-class.Rd:197: file link '[' in package 'S4Vectors' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Hits-class.Rd:208: file link 'c' in package 'S4Vectors' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Hits-class.Rd:303: file link 'findOverlaps' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Hits-class.Rd:306: file link 'Hits-examples' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Hits-setops.Rd:47: file link 'union' in package 'BiocGenerics' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Hits-setops.Rd:48: file link 'intersect' in package 'BiocGenerics' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Hits-setops.Rd:49: file link 'setdiff' in package 'BiocGenerics' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/HitsList-class.Rd:43: file link 'findOverlaps' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/HitsList-class.Rd:44: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/HitsList-class.Rd:53: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/HitsList-class.Rd:76: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/HitsList-class.Rd:107: file link 'findOverlaps' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/HitsList-class.Rd:109: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:59: file link 'IntegerList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:73: file link 'IntegerList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:73: file link 'RleList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:74: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:75: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:79: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:83: file link 'IntegerList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:84: file link 'RleList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:85: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:95: file link 'CompressedList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:144: file link 'CompressedList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:152: file link 'CompressedList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:205: file link 'IntegerList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:206: file link 'LogicalList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:206: file link 'CharacterList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:207: file link 'RleList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:208: file link 'RleList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:208: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:246: file link 'CompressedList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:249: file link 'IntegerList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:249: file link 'RleList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-class.Rd:250: file link 'IRanges' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-utils.Rd:94: file link 'sapply' in package 'base' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-utils.Rd:105: file link 'Reduce' in package 'base' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-utils.Rd:115: file link 'rbind' in package 'base' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-utils.Rd:127: file link 'sapply' in package 'base' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-utils.Rd:156: file link 'Reduce' in package 'base' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-utils.Rd:189: file link 'Reduce' in package 'base' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-utils.Rd:192: file link 'within' in package 'base' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-utils.Rd:207: file link 'Reduce' in package 'base' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-utils.Rd:210: file link 'within' in package 'base' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/List-utils.Rd:214: file link 'rbind' in package 'base' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Pairs-class.Rd:51: file link 'findOverlaps' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Pairs-class.Rd:52: file link 'findOverlapPairs' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Pairs-class.Rd:110: file link 'findOverlapPairs' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/RectangularData-class.Rd:32: file link 'DelayedMatrix' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/RectangularData-class.Rd:33: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/RectangularData-class.Rd:34: file link 'Assays' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/RectangularData-class.Rd:84: file link 'DelayedMatrix' in package 'DelayedArray' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/RectangularData-class.Rd:87: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/RectangularData-class.Rd:89: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Rle-class.Rd:221: file link 'IRanges' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Rle-class.Rd:240: file link 'c' in package 'S4Vectors' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Rle-class.Rd:386: file link 'aggregate' in package 'S4Vectors' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Rle-runstat.Rd:95: file link 'RleList-class' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/SimpleList-class.Rd:85: file link 'CompressedList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/SimpleList-class.Rd:89: file link 'SimpleIntegerList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/TransposedDataFrame-class.Rd:47: file link 'assay' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/TransposedDataFrame-class.Rd:48: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/TransposedDataFrame-class.Rd:74: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Vector-class.Rd:218: file link 'IntegerRanges' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Vector-class.Rd:226: file link 'SummarizedExperiment' in package 'SummarizedExperiment' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Vector-class.Rd:361: file link 'CompressedList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Vector-class.Rd:376: file link 'IRanges' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Vector-class.Rd:377: file link 'XRaw' in package 'XVector' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Vector-comparison.Rd:313: file link 'IntegerRanges' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Vector-comparison.Rd:429: missing file link 'IntegerRanges-comparison'
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Vector-merge.Rd:22: file link 'IntegerRanges' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Vector-merge.Rd:22: file link 'DNAStringSet' in package 'Biostrings' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Vector-setops.Rd:90: file link 'union' in package 'BiocGenerics' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Vector-setops.Rd:91: file link 'intersect' in package 'BiocGenerics' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/Vector-setops.Rd:92: file link 'setdiff' in package 'BiocGenerics' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/aggregate-methods.Rd:38: file link 'end' in package 'BiocGenerics' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/aggregate-methods.Rd:38: file link 'width' in package 'BiocGenerics' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/aggregate-methods.Rd:42: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/aggregate-methods.Rd:44: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/aggregate-methods.Rd:45: file link 'SimpleAtomicList' in package 'IRanges' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/aggregate-methods.Rd:96: file link 'end' in package 'BiocGenerics' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/aggregate-methods.Rd:97: file link 'width' in package 'BiocGenerics' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/bindROWS.Rd:55: file link 'NCOL' in package 'BiocGenerics' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/integer-utils.Rd:69: file link 'seq_len' in package 'base' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/shiftApply-methods.Rd:44: file link 'window' in package 'S4Vectors' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/shiftApply-methods.Rd:45: file link 'aggregate' in package 'S4Vectors' does not exist and so has been treated as a topic
  Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/splitAsList.Rd:100: file link 'relist' in package 'IRanges' does not exist and so has been treated as a topic
See 'C:/Users/biocbuild/bbs-3.12-bioc/meat/S4Vectors.Rcheck/00install.out' for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Unexported objects imported by ':::' calls:
  'data.table:::as.data.frame.data.table'
  'stats:::na.exclude.data.frame' 'stats:::na.omit.data.frame'
  See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
evalSeparately,FilterRules : <anonymous>: no visible global function
  definition for '.'
Undefined global functions or variables:
  .
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... WARNING
Missing link or links in documentation object 'Vector-comparison.Rd':
  '[IRanges]{IntegerRanges-comparison}'

See section 'Cross-references' in the 'Writing R Extensions' manual.

* checking for missing documentation entries ... WARNING
Undocumented code objects:
  'head.LLint' 'pcompareRecursively' 'sort.List' 't.HitsList'
  'tail.LLint' 'window.LLint'
Undocumented S4 methods:
  generic '!' and siglist 'List'
  generic '<=' and siglist 'List,List'
  generic '<=' and siglist 'List,list'
  generic '<=' and siglist 'list,List'
  generic '==' and siglist 'List,List'
  generic '==' and siglist 'List,list'
  generic '==' and siglist 'list,List'
  generic '[' and siglist 'LLint'
  generic '[<-' and siglist 'Rle'
  generic 'anyNA' and siglist 'List'
  generic 'by' and siglist 'Vector'
  generic 'coerce' and siglist 'ANY,DataFrame_OR_NULL'
  generic 'countMatches' and siglist 'ANY'
  generic 'do.call' and siglist 'ANY,List'
  generic 'droplevels' and siglist 'DataFrame'
  generic 'duplicated' and siglist 'List'
  generic 'eval' and siglist 'expression,Vector'
  generic 'eval' and siglist 'language,Vector'
  generic 'extractCOLS' and siglist 'DataFrame'
  generic 'extractROWS' and siglist 'DataFrame,ANY'
  generic 'extractROWS' and siglist 'LLint,ANY'
  generic 'extractROWS' and siglist 'LLint,NSBS'
  generic 'extractROWS' and siglist 'LLint,RangeNSBS'
  generic 'extractROWS' and siglist 'Vector,ANY'
  generic 'filterRules' and siglist 'FilterResults'
  generic 'from' and siglist 'HitsList'
  generic 'getListElement' and siglist 'SimpleList'
  generic 'grep' and siglist 'ANY,Rle'
  generic 'grepl' and siglist 'ANY,Rle'
  generic 'head' and siglist 'LLint'
  generic 'is.na' and siglist 'List'
  generic 'is.unsorted' and siglist 'List'
  generic 'match' and siglist 'List,List'
  generic 'match' and siglist 'List,Vector'
  generic 'match' and siglist 'List,list'
  generic 'match' and siglist 'List,vector'
  generic 'match' and siglist 'list,List'
  generic 'max' and siglist 'NSBS'
  generic 'mergeROWS' and siglist 'ANY'
  generic 'mergeROWS' and siglist 'DataFrame'
  generic 'mergeROWS' and siglist 'Vector'
  generic 'normalizeSingleBracketReplacementValue' and siglist
    'DataFrame'
  generic 'normalizeSingleBracketReplacementValue' and siglist 'List'
  generic 'order' and siglist 'List'
  generic 'pcompare' and siglist 'List,List'
  generic 'pcompare' and siglist 'List,list'
  generic 'pcompare' and siglist 'list,List'
  generic 'pcompareRecursively' and siglist 'List'
  generic 'pcompareRecursively' and siglist 'list'
  generic 'rank' and siglist 'List'
  generic 'rep.int' and siglist 'LLint'
  generic 'rep' and siglist 'DataFrame'
  generic 'replaceCOLS' and siglist 'DataFrame'
  generic 'replaceROWS' and siglist 'ANY'
  generic 'replaceROWS' and siglist 'DataFrame'
  generic 'replaceROWS' and siglist 'Rle'
  generic 'replaceROWS' and siglist 'Vector'
  generic 'sameAsPreviousROW' and siglist 'Rle'
  generic 'sameAsPreviousROW' and siglist 'atomic'
  generic 'sameAsPreviousROW' and siglist 'complex'
  generic 'sameAsPreviousROW' and siglist 'integer'
  generic 'sameAsPreviousROW' and siglist 'numeric'
  generic 'sort' and siglist 'List'
  generic 'splitAsList' and siglist 'ANY'
  generic 'splitAsList' and siglist 'SortedByQueryHits'
  generic 'summary' and siglist 'FilterResults'
  generic 't' and siglist 'Pairs'
  generic 'tail' and siglist 'LLint'
  generic 'to' and siglist 'HitsList'
  generic 'unique' and siglist 'List'
  generic 'unique' and siglist 'SimpleList'
  generic 'window' and siglist 'LLint'
  generic 'with' and siglist 'Vector'
  generic 'xtabs' and siglist 'Vector'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files for i386 is not available
Note: information on .o files for x64 is not available
File 'C:/Users/biocbuild/bbs-3.12-bioc/R/library/S4Vectors/libs/i386/S4Vectors.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
File 'C:/Users/biocbuild/bbs-3.12-bioc/R/library/S4Vectors/libs/x64/S4Vectors.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs. The detected symbols are linked into the code but
might come from libraries and not actually be called.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
shiftApply-methods 21.57   1.78   23.36
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
shiftApply-methods 19.51   3.12   22.64
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'run_unitTests.R'
 OK
** running tests for arch 'x64' ...
  Running 'run_unitTests.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 3 WARNINGs, 3 NOTEs
See
  'C:/Users/biocbuild/bbs-3.12-bioc/meat/S4Vectors.Rcheck/00check.log'
for details.

Installation output

S4Vectors.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/S4Vectors_0.28.1.tar.gz && rm -rf S4Vectors.buildbin-libdir && mkdir S4Vectors.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=S4Vectors.buildbin-libdir S4Vectors_0.28.1.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL S4Vectors_0.28.1.zip && rm S4Vectors_0.28.1.tar.gz S4Vectors_0.28.1.zip
###
##############################################################################
##############################################################################


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100  254k  100  254k    0     0  6344k      0 --:--:-- --:--:-- --:--:-- 6528k

install for i386

* installing *source* package 'S4Vectors' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c AEbufs.c -o AEbufs.o
AEbufs.c: In function '_increase_buflength':
AEbufs.c:16:23: warning: conversion from 'long long unsigned int' to 'size_t' {aka 'unsigned int'} changes value from '4294967296' to '0' [-Woverflow]
 #define MAX_BUFLENGTH (128ULL * MAX_BUFLENGTH_INC)  // 2^32
                       ^
AEbufs.c:31:9: note: in expansion of macro 'MAX_BUFLENGTH'
  return MAX_BUFLENGTH;
         ^~~~~~~~~~~~~
AEbufs.c: In function '_IntAEAE_toEnvir':
AEbufs.c:626:36: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
   snprintf(key, sizeof(key), "%010lu", i + keyshift);
                               ~~~~~^   ~~~~~~~~~~~~
                               %010u
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c DataFrame_class.c -o DataFrame_class.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c Hits_class.c -o Hits_class.o
In file included from C:/Users/BIOCBU~1/BBS-3~1.12-/R/include/Rdefines.h:40,
                 from ../inst/include/S4Vectors_defines.h:18,
                 from S4Vectors.h:1,
                 from Hits_class.c:4:
Hits_class.c: In function 'Hits_new':
C:/Users/BIOCBU~1/BBS-3~1.12-/R/include/Rinternals.h:1547:20: warning: 'revmap' may be used uninitialized in this function [-Wmaybe-uninitialized]
 #define defineVar  Rf_defineVar
                    ^~~~~~~~~~~~
Hits_class.c:216:12: note: 'revmap' was declared here
  SEXP ans, revmap, symbol;
            ^~~~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c LLint_class.c -o LLint_class.o
LLint_class.c: In function 'from_llints_to_STRSXP':
LLint_class.c:358:27: warning: unknown conversion type character 'l' in format [-Wformat=]
   if (sprintf(val_buf, "%lld", from_elt) < 0)
                           ^
LLint_class.c:358:24: warning: too many arguments for format [-Wformat-extra-args]
   if (sprintf(val_buf, "%lld", from_elt) < 0)
                        ^~~~~~
LLint_class.c:358:27: warning: unknown conversion type character 'l' in format [-Wformat=]
   if (sprintf(val_buf, "%lld", from_elt) < 0)
                           ^
LLint_class.c:358:24: warning: too many arguments for format [-Wformat-extra-args]
   if (sprintf(val_buf, "%lld", from_elt) < 0)
                        ^~~~~~
LLint_class.c: In function 'llints_summary':
LLint_class.c:775:35: warning: 'res' may be used uninitialized in this function [-Wmaybe-uninitialized]
     if (res == NA_LLINT || in_elt > res)
                            ~~~~~~~^~~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c List_class.c -o List_class.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c R_init_S4Vectors.c -o R_init_S4Vectors.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c Rle_class.c -o Rle_class.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c Rle_utils.c -o Rle_utils.o
Rle_utils.c: In function 'Rle_real_runq':
Rle_utils.c:701:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
     if (count_na != 0)
     ^~
Rle_utils.c:703:6: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
      q_index = roundingScale(window_len_na,
      ^~~~~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c SEXP_utils.c -o SEXP_utils.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c SimpleList_class.c -o SimpleList_class.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c anyMissing.c -o anyMissing.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c character_utils.c -o character_utils.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c eval_utils.c -o eval_utils.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c hash_utils.c -o hash_utils.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c integer_utils.c -o integer_utils.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c logical_utils.c -o logical_utils.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c map_ranges_to_runs.c -o map_ranges_to_runs.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c raw_utils.c -o raw_utils.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c safe_arithm.c -o safe_arithm.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c sort_utils.c -o sort_utils.o
sort_utils.c:263:13: warning: 'sort_uchar_array' defined but not used [-Wunused-function]
 static void sort_uchar_array(unsigned char *x, int nelt, int desc)
             ^~~~~~~~~~~~~~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c subsetting_utils.c -o subsetting_utils.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c vector_utils.c -o vector_utils.o
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o S4Vectors.dll tmp.def AEbufs.o DataFrame_class.o Hits_class.o LLint_class.o List_class.o R_init_S4Vectors.o Rle_class.o Rle_utils.o SEXP_utils.o SimpleList_class.o anyMissing.o character_utils.o eval_utils.o hash_utils.o integer_utils.o logical_utils.o map_ranges_to_runs.o raw_utils.o safe_arithm.o sort_utils.o subsetting_utils.o vector_utils.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/S4Vectors.buildbin-libdir/00LOCK-S4Vectors/00new/S4Vectors/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
in method for 'normalizeSingleBracketReplacementValue' with signature '"List"': no definition for class "List"
Creating a new generic function for 'expand.grid' in package 'S4Vectors'
Creating a new generic function for 'findMatches' in package 'S4Vectors'
Creating a generic function for 'setequal' from package 'base' in package 'S4Vectors'
in method for 'coerce' with signature '"Hits","DFrame"': no definition for class "DFrame"
Creating a generic function for 'as.factor' from package 'base' in package 'S4Vectors'
Creating a generic function for 'tabulate' from package 'base' in package 'S4Vectors'
Creating a generic function for 'cov' from package 'stats' in package 'S4Vectors'
Creating a generic function for 'cor' from package 'stats' in package 'S4Vectors'
Creating a generic function for 'smoothEnds' from package 'stats' in package 'S4Vectors'
Creating a generic function for 'runmed' from package 'stats' in package 'S4Vectors'
Creating a generic function for 'nchar' from package 'base' in package 'S4Vectors'
Creating a generic function for 'substr' from package 'base' in package 'S4Vectors'
Creating a generic function for 'substring' from package 'base' in package 'S4Vectors'
Creating a generic function for 'chartr' from package 'base' in package 'S4Vectors'
Creating a generic function for 'tolower' from package 'base' in package 'S4Vectors'
Creating a generic function for 'toupper' from package 'base' in package 'S4Vectors'
Creating a generic function for 'sub' from package 'base' in package 'S4Vectors'
Creating a generic function for 'gsub' from package 'base' in package 'S4Vectors'
Creating a generic function for 'nlevels' from package 'base' in package 'S4Vectors'
in method for 'coerce' with signature '"data.table","DFrame"': no definition for class "data.table"
Creating a generic function for 'complete.cases' from package 'stats' in package 'S4Vectors'
** help
*** installing help indices
  converting help for package 'S4Vectors'
    finding HTML links ... done
    Annotated-class                         html  
    DataFrame-class                         html  
    DataFrame-comparison                    html  
    DataFrame-utils                         html  
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    Factor-class                            html  
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    FilterMatrix-class                      html  
    FilterRules-class                       html  
    Hits-class                              html  
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    Hits-comparison                         html  
    Hits-setops                             html  
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    HitsList-class                          html  
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    LLint-class                             html  
    List-class                              html  
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    List-utils                              html  
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    Pairs-class                             html  
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    RectangularData-class                   html  
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    Rle-class                               html  
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    Rle-runstat                             html  
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    Rle-utils                               html  
    S4Vectors-internals                     html  
    SimpleList-class                        html  
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    TransposedDataFrame-class               html  
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    Vector-class                            html  
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    Vector-comparison                       html  
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    Vector-merge                            html  
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    Vector-setops                           html  
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    aggregate-methods                       html  
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Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/aggregate-methods.Rd:42: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/aggregate-methods.Rd:44: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/aggregate-methods.Rd:45: file link 'SimpleAtomicList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/aggregate-methods.Rd:96: file link 'end' in package 'BiocGenerics' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/aggregate-methods.Rd:97: file link 'width' in package 'BiocGenerics' does not exist and so has been treated as a topic
    bindROWS                                html  
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/bindROWS.Rd:55: file link 'NCOL' in package 'BiocGenerics' does not exist and so has been treated as a topic
    character-utils                         html  
    expand-methods                          html  
    integer-utils                           html  
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/integer-utils.Rd:69: file link 'seq_len' in package 'base' does not exist and so has been treated as a topic
    isSorted                                html  
    shiftApply-methods                      html  
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/shiftApply-methods.Rd:44: file link 'window' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/shiftApply-methods.Rd:45: file link 'aggregate' in package 'S4Vectors' does not exist and so has been treated as a topic
    show-utils                              html  
    splitAsList                             html  
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpUH1HDe/R.INSTALL12c844c371df/S4Vectors/man/splitAsList.Rd:100: file link 'relist' in package 'IRanges' does not exist and so has been treated as a topic
    stack-methods                           html  
    subsetting-utils                        html  
    zip-methods                             html  
** building package indices
** installing vignettes
   'RleTricks.Rnw' using 'UTF-8' 
   'S4QuickOverview.Rnw' using 'UTF-8' 
   'S4VectorsOverview.Rnw' 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 'S4Vectors' ...
** libs
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c AEbufs.c -o AEbufs.o
AEbufs.c: In function '_IntAEAE_toEnvir':
AEbufs.c:626:36: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'size_t' {aka 'long long unsigned int'} [-Wformat=]
   snprintf(key, sizeof(key), "%010lu", i + keyshift);
                               ~~~~~^   ~~~~~~~~~~~~
                               %010I64u
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c DataFrame_class.c -o DataFrame_class.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c Hits_class.c -o Hits_class.o
In file included from C:/Users/BIOCBU~1/BBS-3~1.12-/R/include/Rdefines.h:40,
                 from ../inst/include/S4Vectors_defines.h:18,
                 from S4Vectors.h:1,
                 from Hits_class.c:4:
Hits_class.c: In function 'Hits_new':
C:/Users/BIOCBU~1/BBS-3~1.12-/R/include/Rinternals.h:1547:20: warning: 'revmap' may be used uninitialized in this function [-Wmaybe-uninitialized]
 #define defineVar  Rf_defineVar
                    ^~~~~~~~~~~~
Hits_class.c:216:12: note: 'revmap' was declared here
  SEXP ans, revmap, symbol;
            ^~~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c LLint_class.c -o LLint_class.o
LLint_class.c: In function 'from_llints_to_STRSXP':
LLint_class.c:358:27: warning: unknown conversion type character 'l' in format [-Wformat=]
   if (sprintf(val_buf, "%lld", from_elt) < 0)
                           ^
LLint_class.c:358:24: warning: too many arguments for format [-Wformat-extra-args]
   if (sprintf(val_buf, "%lld", from_elt) < 0)
                        ^~~~~~
LLint_class.c:358:27: warning: unknown conversion type character 'l' in format [-Wformat=]
   if (sprintf(val_buf, "%lld", from_elt) < 0)
                           ^
LLint_class.c:358:24: warning: too many arguments for format [-Wformat-extra-args]
   if (sprintf(val_buf, "%lld", from_elt) < 0)
                        ^~~~~~
LLint_class.c: In function 'llints_summary':
LLint_class.c:775:35: warning: 'res' may be used uninitialized in this function [-Wmaybe-uninitialized]
     if (res == NA_LLINT || in_elt > res)
                            ~~~~~~~^~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c List_class.c -o List_class.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c R_init_S4Vectors.c -o R_init_S4Vectors.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c Rle_class.c -o Rle_class.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c Rle_utils.c -o Rle_utils.o
Rle_utils.c: In function 'Rle_real_runq':
Rle_utils.c:701:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
     if (count_na != 0)
     ^~
Rle_utils.c:703:6: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
      q_index = roundingScale(window_len_na,
      ^~~~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c SEXP_utils.c -o SEXP_utils.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c SimpleList_class.c -o SimpleList_class.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c anyMissing.c -o anyMissing.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c character_utils.c -o character_utils.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c eval_utils.c -o eval_utils.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c hash_utils.c -o hash_utils.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c integer_utils.c -o integer_utils.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c logical_utils.c -o logical_utils.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c map_ranges_to_runs.c -o map_ranges_to_runs.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c raw_utils.c -o raw_utils.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c safe_arithm.c -o safe_arithm.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c sort_utils.c -o sort_utils.o
sort_utils.c:263:13: warning: 'sort_uchar_array' defined but not used [-Wunused-function]
 static void sort_uchar_array(unsigned char *x, int nelt, int desc)
             ^~~~~~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c subsetting_utils.c -o subsetting_utils.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c vector_utils.c -o vector_utils.o
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o S4Vectors.dll tmp.def AEbufs.o DataFrame_class.o Hits_class.o LLint_class.o List_class.o R_init_S4Vectors.o Rle_class.o Rle_utils.o SEXP_utils.o SimpleList_class.o anyMissing.o character_utils.o eval_utils.o hash_utils.o integer_utils.o logical_utils.o map_ranges_to_runs.o raw_utils.o safe_arithm.o sort_utils.o subsetting_utils.o vector_utils.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/S4Vectors.buildbin-libdir/S4Vectors/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'S4Vectors' as S4Vectors_0.28.1.zip
* DONE (S4Vectors)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'S4Vectors' successfully unpacked and MD5 sums checked

Tests output

S4Vectors.Rcheck/tests_i386/run_unitTests.Rout


R version 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> require("S4Vectors") || stop("unable to load S4Vectors package")
Loading required package: S4Vectors
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
    tapply, union, unique, unsplit, which.max, which.min


Attaching package: 'S4Vectors'

The following object is masked from 'package:base':

    expand.grid

[1] TRUE
> S4Vectors:::.test()

Attaching package: 'IRanges'

The following object is masked from 'package:grDevices':

    windows

Loading required package: GenomeInfoDb


RUNIT TEST PROTOCOL -- Thu May 06 06:36:22 2021 
*********************************************** 
Number of test functions: 64 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
S4Vectors RUnit Tests - 64 test functions, 0 errors, 0 failures
Number of test functions: 64 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
   9.84    0.26   10.10

S4Vectors.Rcheck/tests_x64/run_unitTests.Rout


R version 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> require("S4Vectors") || stop("unable to load S4Vectors package")
Loading required package: S4Vectors
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
    tapply, union, unique, unsplit, which.max, which.min


Attaching package: 'S4Vectors'

The following object is masked from 'package:base':

    expand.grid

[1] TRUE
> S4Vectors:::.test()

Attaching package: 'IRanges'

The following object is masked from 'package:grDevices':

    windows

Loading required package: GenomeInfoDb


RUNIT TEST PROTOCOL -- Thu May 06 06:36:34 2021 
*********************************************** 
Number of test functions: 64 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
S4Vectors RUnit Tests - 64 test functions, 0 errors, 0 failures
Number of test functions: 64 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
  11.25    0.23   11.46

Example timings

S4Vectors.Rcheck/examples_i386/S4Vectors-Ex.timings

nameusersystemelapsed
Annotated-class0.720.040.76
DataFrame-class0.230.000.23
DataFrame-comparison0.060.020.08
DataFrame-utils0.140.000.14
Factor-class0.30.00.3
FilterRules-class0.110.000.11
Hits-class0.050.010.06
Hits-comparison0.030.000.03
Hits-setops0.160.000.16
HitsList-class0.070.000.07
LLint-class0.030.000.04
List-class000
List-utils0.100.000.09
Pairs-class0.060.020.08
RectangularData-class000
Rle-class0.060.000.06
Rle-runstat0.140.000.14
Rle-utils0.020.000.02
SimpleList-class0.030.000.03
TransposedDataFrame-class3.560.203.76
Vector-class000
Vector-comparison0.050.000.05
Vector-merge0.580.170.75
Vector-setops000
aggregate-methods0.110.020.12
character-utils000
expand-methods0.420.010.44
integer-utils000
isSorted0.020.000.02
shiftApply-methods21.57 1.7823.36
splitAsList0.070.000.06
stack-methods0.040.000.05
zip-methods0.020.000.01

S4Vectors.Rcheck/examples_x64/S4Vectors-Ex.timings

nameusersystemelapsed
Annotated-class1.200.031.23
DataFrame-class0.370.000.38
DataFrame-comparison0.090.000.09
DataFrame-utils0.220.000.22
Factor-class0.470.000.47
FilterRules-class0.190.000.19
Hits-class0.120.000.12
Hits-comparison0.060.000.07
Hits-setops0.160.000.15
HitsList-class0.080.000.08
LLint-class0.030.000.03
List-class000
List-utils0.090.000.10
Pairs-class0.090.000.10
RectangularData-class000
Rle-class0.060.000.06
Rle-runstat0.160.000.15
Rle-utils0.030.000.04
SimpleList-class0.020.000.01
TransposedDataFrame-class3.980.144.12
Vector-class000
Vector-comparison0.10.00.1
Vector-merge0.650.030.68
Vector-setops000
aggregate-methods0.60.00.6
character-utils0.000.020.01
expand-methods0.680.000.69
integer-utils000
isSorted000
shiftApply-methods19.51 3.1222.64
splitAsList0.100.000.09
stack-methods0.040.020.06
zip-methods0.020.000.02