Package: GenomeGraphs

Version: 1.8.0

Command: /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/R CMD check --no-vignettes --timings GenomeGraphs_1.8.0.tar.gz

StartedAt: 2010-10-04 17:11:41 -0700 (Mon, 04 Oct 2010)

EndedAt: 2010-10-04 17:12:47 -0700 (Mon, 04 Oct 2010)

EllapsedTime: 65.7 seconds

RetCode: 0

Status:  OK

CheckDir: GenomeGraphs.Rcheck

Warnings: 0

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.6-bioc/meat/GenomeGraphs.Rcheck'
* using R version 2.11.1 Patched (2010-05-31 r52167)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'GenomeGraphs/DESCRIPTION' ... OK
* this is package 'GenomeGraphs' version '1.8.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'GenomeGraphs' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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
* 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

* install options are ' --no-html'

* installing *source* package ‘GenomeGraphs’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (GenomeGraphs)

name	user	system	elapsed
AnnotationTrack-class	0.002	0.000	0.003
BaseTrack-class	0.002	0.000	0.001
DisplayPars-class	0.006	0.000	0.007
DisplayPars	0.470	0.017	4.995
ExonArray-class	0.018	0.000	0.018
Gene-class	0.001	0.000	0.002
GeneModel-class	0.169	0.005	0.174
GeneRegion-class	0.001	0.000	0.001
GenericArray-class	0.002	0.001	0.002
GenomeAxis-class	0.002	0.000	0.002
HighlightRegion-class	0.005	0.001	0.005
Ideogram-class	0.003	0.000	0.002
ImplementsTrackOverlay-class	0.001	0.000	0.002
Legend-class	0.001	0.000	0.001
MappedRead-class	0	0	0
Overlay-class	0.001	0.000	0.002
RectangleOverlay-class	0.002	0.000	0.002
Segmentation-class	0.001	0.000	0.002
Smoothing-class	0.001	0.000	0.001
TextOverlay-class	0.001	0.000	0.002
Title-class	0.001	0.001	0.001
TrackOverlay-class	0.001	0.000	0.002
Transcript-class	0.002	0.000	0.001
TranscriptRegion-class	0.002	0.000	0.001
cn	0	0	0
exonProbePos	0.001	0.000	0.000
gdObject-class	0.003	0.000	0.004
gdPlot	2.853	0.023	8.075
getPar	0.005	0.000	0.005
ideogramTab	0.002	0.001	0.003
intensity	0	0	0
makeAnnotationTrack	0.047	0.001	0.048
makeBaseTrack	0.006	0.001	0.006
makeExonArray	0.009	0.000	0.009
makeGene	0.003	0.001	0.004
makeGeneModel	0.002	0.000	0.002
makeGeneRegion	0.005	0.001	0.004
makeGenericArray	0.002	0.000	0.002
makeGenomeAxis	0.002	0.000	0.002
makeIdeogram	0.003	0.000	0.003
makeLegend	0.003	0.000	0.002
makeRectangleOverlay	0.142	0.003	0.147
makeSegmentation	0.115	0.003	0.118
makeSmoothing	0.164	0.003	0.170
makeTextOverlay	0.130	0.002	0.133
makeTitle	0.003	0.000	0.003
makeTranscript	0.003	0.001	0.004
probestart	0	0	0
segEnd	0.001	0.001	0.000
segStart	0.000	0.000	0.001
segments	0.000	0.000	0.001
seqDataEx	0.044	0.002	0.046
setPar	0.023	0.000	0.023
showDisplayOptions	0.002	0.000	0.002
unrData	0.000	0.000	0.001
unrNProbes	0	0	0
unrPositions	0	0	0
yeastCons1	0	0	0