Package: ABarray

Version: 1.16.0

Command: /home/biocbuild/bbs-2.6-bioc/R/bin/R CMD check --no-vignettes --timings ABarray_1.16.0.tar.gz

StartedAt: 2010-10-04 15:30:02 -0700 (Mon, 04 Oct 2010)

EndedAt: 2010-10-04 15:30:35 -0700 (Mon, 04 Oct 2010)

EllapsedTime: 33.0 seconds

RetCode: 0

Status:  OK

CheckDir: ABarray.Rcheck

Warnings: 0

* checking for working pdflatex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.6-bioc/meat/ABarray.Rcheck'
* using R version 2.11.1 (2010-05-31)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ABarray/DESCRIPTION' ... OK
* this is package 'ABarray' version '1.16.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'ABarray' 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 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
ABarray: no visible binding for global variable 'colSn'
ABarrayGUI : getImputeFunc: no visible binding for global variable
  'knnRbtn'
getPantherMap: no visible binding for global variable 'panther'
* checking Rd files ... NOTE
prepare_Rd: ABarrayGUI.Rd:12-13: Dropping empty section \arguments
prepare_Rd: calcsn.Rd:26-28: Dropping empty section \examples
prepare_Rd: cvvPlot.Rd:24-26: Dropping empty section \examples
prepare_Rd: cvv.Rd:22-24: Dropping empty section \examples
prepare_Rd: doVennDiagram.Rd:33-36: Dropping empty section \examples
prepare_Rd: getMemberEset.Rd:23-25: Dropping empty section \examples
prepare_Rd: getPantherMap.Rd:24-26: Dropping empty section \examples
prepare_Rd: hclusterPlot.Rd:27-29: Dropping empty section \examples
prepare_Rd: matrixPlot.Rd:32-34: Dropping empty section \examples
prepare_Rd: qnNormalize.Rd:52-54: Dropping empty section \examples
prepare_Rd: savejpg.Rd:26-28: Dropping empty section \examples
prepare_Rd: snSummary.Rd:22-25: Dropping empty section \examples
* 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 examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

* install options are ' --no-html'

* installing *source* package 'ABarray' ...
** R
** inst
** preparing package for lazy loading

Welcome to Bioconductor

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

Loading Tcl/Tk interface ... done
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded


Welcome to Applied Biosystems AB1700
     This package performs analysis for AB1700
     gene expression data

* DONE (ABarray)

name	user	system	elapsed
ABarray	0	0	0
ABarrayGUI	0	0	0
concord	0	0	0
doANOVA	0	0	0
doLPE	0	0	0
doPlotEset	0	0	0
doPlotFCT	0	0	0
drawVennDiagram	0.000	0.000	0.001
icpPlot	0	0	0
imputeFlag	0	0	0
lpe.fdr.BH	0.004	0.000	0.000
mamaplot	0	0	0
mvaPair2	0	0	0
panel.cor	0	0	0
panel.scatter	0	0	0
rgcolorsfunc	0.004	0.000	0.000
scaleColorBar	0	0	0