Package: Agi4x44PreProcess

Version: 1.12.0

Command: D:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch Agi4x44PreProcess_1.12.0.tar.gz

StartedAt: 2011-10-20 12:53:00 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 12:54:20 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 80.3 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: Agi4x44PreProcess.Rcheck

Warnings: 1

* using log directory 'D:/biocbld/bbs-2.8-bioc/meat/Agi4x44PreProcess.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Agi4x44PreProcess/DESCRIPTION' ... OK
* this is package 'Agi4x44PreProcess' version '1.12.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Agi4x44PreProcess' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... 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 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 ... NOTE
File type 'perl' not found or no open command associated with it.
File type 'perl' not found or no open command associated with it.
* 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 examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... WARNING
Package vignette(s) without corresponding PDF:
   Agi4x44PreProcess.Rnw

* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

WARNING: There was 1 warning, see
  'D:/biocbld/bbs-2.8-bioc/meat/Agi4x44PreProcess.Rcheck/00check.log'
for details

* installing *source* package 'Agi4x44PreProcess' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (Agi4x44PreProcess)

name	user	system	elapsed
Agi4x44PreProcess-package	0	0	0
BGandNorm	0.00	0.02	0.01
BoxPlot	0	0	0
CV.rep.probes	0	0	0
HeatMap	0	0	0
MVAplotMED	0	0	0
MVAplotMEDctrl	2.21	0.03	2.24
PCAplot	0	0	0
RLE	0	0	0
boxplotNegCtrl	0	0	0
build.eset	0	0	0
build.mappings	0	0	0
dd	0	0	0
ensembl.htmlpage	0	0	0
filter.NonUnifOL	0	0	0
filter.PopnOL	0	0	0
filter.control	0	0	0
filter.isfound	0	0	0
filter.probes	0	0	0
filter.saturated	0	0	0
filter.wellaboveBG	0	0	0
filter.wellaboveNEG	0	0	0
genes.rpt.agi	4.03	0.03	4.61
gsea.files	0	0	0
hierclus	0	0	0
plotDensity	0	0	0
read.AgilentFE	0.18	0.00	0.17
read.targets	0	0	0
summarize.probe	0	0	0
targets	0	0	0
write.eset	0	0	0