Package: geneplotter

Version: 1.31.0

Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch geneplotter_1.31.0.tar.gz

StartedAt: 2011-05-09 14:44:07 -0700 (Mon, 09 May 2011)

EndedAt: 2011-05-09 14:45:45 -0700 (Mon, 09 May 2011)

EllapsedTime: 97.8 seconds

RetCode: 0

Status:  OK

CheckDir: geneplotter.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.9-bioc/meat/geneplotter.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-04-24 r55634)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘geneplotter/DESCRIPTION’ ... OK
* this is package ‘geneplotter’ version ‘1.31.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘geneplotter’ can be installed ... OK
* checking installed package size ... 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 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 sizes of PDF files under ‘inst/doc’ ... NOTE
  ‘qpdf’ made some significant size reductions:
     compacted ‘byChroms.pdf’ from 361Kb to 90Kb
     compacted ‘visualize.pdf’ from 1214Kb to 209Kb
  consider running tools::compactPDF() on these files
* checking examples ... 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package ‘geneplotter’ ...
** R
** data
** inst
** preparing package for lazy loading

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation("pkgname")'.

Loading required package: AnnotationDbi
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘byChroms.Rnw’ 
   ‘visualize.Rnw’ 
** testing if installed package can be loaded

* DONE (geneplotter)

name	user	system	elapsed
GetColor	0.004	0.001	0.004
Makesense	4.099	0.187	4.355
alongChrom	2.567	0.068	2.649
amplicon.plot	0.000	0.000	0.001
cColor	2.083	0.034	2.120
cPlot	2.031	0.030	2.069
cScale	2.029	0.036	2.143
eset133a	0.130	0.006	0.140
groupedHeatmap	1.101	0.005	1.116
histStack	0.021	0.001	0.022
imageMap	0.119	0.014	0.172
make.chromOrd	0.231	0.013	0.255
multiecdf	0.096	0.005	0.101
openHtmlPage	0.002	0.000	0.002
plotChr	3.319	0.094	3.486
plotExpressionGraph	2.107	0.081	2.718
savepng	0.225	0.061	0.493