BioC 2.12: CHECK report for Gviz on george2

Package: Gviz

Version: 1.4.5

Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings Gviz_1.4.5.tar.gz

StartedAt: 2013-10-09 02:29:59 -0700 (Wed, 09 Oct 2013)

EndedAt: 2013-10-09 02:38:43 -0700 (Wed, 09 Oct 2013)

EllapsedTime: 524.0 seconds

RetCode: 0

Status:  OK

CheckDir: Gviz.Rcheck

Warnings: 0

* using log directory ‘/home/biocbuild/bbs-2.12-bioc/meat/Gviz.Rcheck’
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Gviz/DESCRIPTION’ ... OK
* this is package ‘Gviz’ version ‘1.4.5’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘Gviz’ can be installed ... [45s/45s] OK
* checking installed package size ... OK
* checking package 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
* 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 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 for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking examples ... [83s/84s] OK
Examples with CPU or elapsed time > 5s
                               user system elapsed
SequenceTrack-class          13.585  1.272  15.285
GeneRegionTrack-class        11.457  0.056  11.725
AnnotationTrack-class        11.081  0.160  11.259
plotTracks                    6.789  0.012   7.104
GenomeAxisTrack-class         5.412  0.020   5.455
BiomartGeneRegionTrack-class  4.892  0.036   5.046
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package ‘Gviz’ ...
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for ‘subset’ from package ‘base’ in package ‘Gviz’
Creating a generic function for ‘head’ from package ‘utils’ in package ‘Gviz’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (Gviz)

name	user	system	elapsed
AlignedReadTrack-class	4.164	0.064	4.254
AnnotationTrack-class	11.081	0.160	11.259
BiomartGeneRegionTrack-class	4.892	0.036	5.046
DataTrack-class	2.452	0.020	2.482
DisplayPars-class	0.172	0.000	0.170
GeneRegionTrack-class	11.457	0.056	11.725
GenomeAxisTrack-class	5.412	0.020	5.455
IdeogramTrack-class	0.596	0.008	0.622
SequenceTrack-class	13.585	1.272	15.285
plotTracks	6.789	0.012	7.104