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arrayQCplot

2.5.0

Eun-kyung Lee
Last Changed Date: 2007-04-24 11:31:42 -0700
Last Changed Rev: 24217
lamb1 Linux (SUSE 10.1) x86_64  OK [ OK ]
wellington Linux (SUSE 9.2) i686  OK  ERROR 
churchill Solaris 2.9 sparc  OK  ERROR 
lemming Windows Server 2003 (32-bit) x64 N O T   S U P P O R T E D
Package: arrayQCplot
Version: 2.5.0
Command: /home/biocbuild/bbs-2.1-bioc/R/bin/R CMD check arrayQCplot_2.5.0.tar.gz
RetCode: 0
Time: 27.5 seconds
Status: OK
CheckDir: arrayQCplot.Rcheck
Warnings: 0

Command output

* checking for working latex ... OK
* using log directory '/home/biocbuild/bbs-2.1-bioc/meat/arrayQCplot.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-05-03 r41426)
* checking for file 'arrayQCplot/DESCRIPTION' ... OK
* this is package 'arrayQCplot' version '2.5.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'arrayQCplot' 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 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
arrayQC.plot: no visible binding for '<<-' assignment to 'expinfo.flag'
arrayQC.plot: no visible binding for '<<-' assignment to
  'Normalization.flag'
arrayQC.plot: no visible binding for '<<-' assignment to 'Raw.flag'
arrayQC.plot: no visible binding for '<<-' assignment to 'cDNA.RAW'
arrayQC.plot: no visible binding for '<<-' assignment to 'exp.name'
arrayQC.plot: no visible binding for '<<-' assignment to
  'high.chip.list'
arrayQC.plot: no visible binding for '<<-' assignment to
  'high.gene.list'
arrayQC.plot: no visible binding for '<<-' assignment to 'cDNA.Norm'
arrayQC.plot: no visible binding for '<<-' assignment to 'Result.Save'
arrayQC.plot: no visible binding for '<<-' assignment to 'chip.info'
arrayQC.plot: no visible binding for '<<-' assignment to 'name.Gf.flag'
arrayQC.plot: no visible binding for '<<-' assignment to 'name.Gb.flag'
arrayQC.plot: no visible binding for '<<-' assignment to 'name.Rf.flag'
arrayQC.plot: no visible binding for '<<-' assignment to 'name.Rb.flag'
arrayQC.plot: no visible binding for '<<-' assignment to
  'name.print.tip.row.flag'
arrayQC.plot: no visible binding for '<<-' assignment to
  'name.print.tip.col.flag'
arrayQC.plot: no visible binding for '<<-' assignment to
  'name.gene.flag'
arrayQC.plot : chipListSelectRow.handler: no visible binding for '<<-'
  assignment to 'high.chip.list'
arrayQC.plot : chipListSelectRow.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : chipListUnselectRow.handler: no visible binding for
  '<<-' assignment to 'high.chip.list'
arrayQC.plot : chipListUnselectRow.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : chipListUnselectRow.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : geneListSelectRow.handler: no visible binding for '<<-'
  assignment to 'high.gene.list'
arrayQC.plot : geneListSelectRow.handler: no visible binding for global
  variable 'high.gene.list'
arrayQC.plot : geneListUnselectRow.handler: no visible binding for
  '<<-' assignment to 'high.gene.list'
arrayQC.plot : geneListUnselectRow.handler: no visible binding for
  global variable 'high.gene.list'
arrayQC.plot : geneListUnselectRow.handler: no visible binding for
  global variable 'high.gene.list'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.Gf'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.Gb'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.Rf'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.Rb'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.print.tip.row'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.print.tip.col'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.gene'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'inut.sep'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'skip.input'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.Gf'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Gf.p'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.Gb'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Gb.p'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.Rf'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Rf.p'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.Rb'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Rb.p'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.print.tip.row'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.print.tip.row.p'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.print.tip.col'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.print.tip.col.p'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.gene'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'input.sep'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'input.sep.p'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'input.sep'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'input.sep'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'skip.input'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'skip.p'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'list.name'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.gene'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Gf'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Rf'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Gb'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Rb'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.print.tip.row'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.print.tip.col'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'list.id'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'list.name'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'list.name'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'list.name'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'list.id'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.gene'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.gene.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Gf'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.Gf.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Gb'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.Gb.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Rf'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.Rf.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Rb'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.Rb.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.print.tip.row'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.print.tip.row.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.print.tip.col'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'name.print.tip.col.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'Var.name.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'variable'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'variable'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Gf.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for global variable 'name.Rf.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler: no visible binding
  for '<<-' assignment to 'cDNA.RAW'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'input.sep'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'skip.input'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'list.name'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'list.id'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'name.gene.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for '<<-' assignment to 'Result.Save'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'Result.Save'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'new.text'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'outputText'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'new.text'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'name.Gb.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'name.Rb.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'name.print.tip.row.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'name.print.tip.col.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'name.print.tip.row.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'name.print.tip.col.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'name.print.tip.row.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'name.print.tip.col.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for '<<-' assignment to 'cDNA.RAW'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'cDNA.RAW'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for '<<-' assignment to 'exp.name'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'exp.name'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for '<<-' assignment to 'Raw.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'cDNA.RAW'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'cDNA.RAW'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'cDNA.RAW'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'cDNA.RAW'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for '<<-' assignment to 'cDNA.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for '<<-' assignment to 'gene.name'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'cDNA.RAW'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'geneList'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'gene.name'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for '<<-' assignment to 'chip.info'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'exp.name'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'chipList'
arrayQC.plot : Mnu.cDNA.Raw.handler : ok.handler : <anonymous>: no
  visible binding for global variable 'chip.info'
arrayQC.plot : Mnu.cDNA.Raw.handler : cancel.handler: no visible
  binding for '<<-' assignment to 'Var.name.flag'
arrayQC.plot : Mnu.cDNA.Raw.handler : cancel.handler: no visible
  binding for global variable 'variable'
arrayQC.plot : Mnu.cDNA.Raw.handler : cancel.handler: no visible
  binding for global variable 'variable'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'variable'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.Gf.p'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.Rf.p'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.Gb.p'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.Rb.p'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.print.tip.row.p'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'name.print.tip.col.p'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'input.sep.p'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for '<<-'
  assignment to 'skip.p'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for global
  variable 'variable'
arrayQC.plot : Mnu.cDNA.Raw.handler: no visible binding for global
  variable 'variable'
arrayQC.plot : removeMainList: no visible binding for global variable
  'chipList'
arrayQC.plot : makeChip.Info: no visible binding for global variable
  'expinfo.flag'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'temp.chip.name'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for global variable 'temp.chip.name'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'Result.Save'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for global variable 'Result.Save'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for global variable 'new.text'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for global variable 'outputText'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for global variable 'new.text'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'cDNA.Norm.input'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'gene.name'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'exp.name'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for global variable 'cDNA.Norm.input'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for global variable 'geneList'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for global variable 'gene.name'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'chip.info'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for global variable 'exp.name'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for global variable 'chipList'
arrayQC.plot : Mnu.cDNA.Norm.handler : <anonymous>: no visible binding
  for global variable 'chip.info'
arrayQC.plot : Mnu.Exp.info.handler: no visible binding for '<<-'
  assignment to 'high.chip.list'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'exp.info'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'exp.info.name'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for global variable 'exp.info.name'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'Result.Save'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for global variable 'Result.Save'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for global variable 'new.text'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for global variable 'outputText'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for global variable 'new.text'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'expinfo.flag'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'chip.info'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for global variable 'exp.name'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for global variable 'chipList'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for global variable 'chipList'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for global variable 'chip.info'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for global variable 'exp.info'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'expinfo.flag'
arrayQC.plot : Mnu.Exp.info.handler : <anonymous>: no visible binding
  for '<<-' assignment to 'expinfo.flag'
arrayQC.plot : Mnu.Result.Save.handler: no visible binding for global
  variable 'Result.Save'
arrayQC.plot : Mnu.Result.Save.handler : <anonymous>: no visible
  binding for global variable 'Result.Save'
arrayQC.plot : Mnu.Exit.handler: no visible binding for global variable
  'main'
arrayQC.plot : Mnu.Exit.handler: no visible binding for global variable
  'main'
arrayQC.plot : Mnu.RedvsGreen.plot.handler: no visible binding for
  global variable 'Raw.flag'
arrayQC.plot : Mnu.RedvsGreen.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.RedvsGreen.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.RedvsGreen.plot.handler: no visible binding for
  global variable 'cDNA.RAW'
arrayQC.plot : Mnu.RedvsGreen.plot.handler: no visible binding for
  global variable 'cDNA.RAW'
arrayQC.plot : Mnu.RedvsGreen.plot.handler: no visible binding for
  global variable 'exp.info'
arrayQC.plot : Mnu.Box.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Box.plot.handler: no visible binding for global
  variable 'Normalization.flag'
arrayQC.plot : Mnu.Box.plot.handler: no visible binding for global
  variable 'Raw.flag'
arrayQC.plot : Mnu.Box.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Box.plot.handler: no visible binding for global
  variable 'cDNA.Norm'
arrayQC.plot : Mnu.Box.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Box.plot.handler: no visible binding for global
  variable 'cDNA.Norm.input'
arrayQC.plot : Mnu.Box.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Box.plot.handler: no visible binding for global
  variable 'exp.info'
arrayQC.plot : Mnu.Box.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.MvA.plot.handler: no visible binding for global
  variable 'Raw.flag'
arrayQC.plot : Mnu.MvA.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.MvA.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.MvA.plot.handler: no visible binding for global
  variable 'Normalization.flag'
arrayQC.plot : Mnu.MvA.plot.handler: no visible binding for global
  variable 'cDNA.Norm'
arrayQC.plot : Mnu.MvA.plot.handler: no visible binding for global
  variable 'cDNA.Norm'
arrayQC.plot : Mnu.MvA.plot.handler: no visible binding for global
  variable 'exp.info'
arrayQC.plot : Mnu.MvA.plot.handler: no visible binding for global
  variable 'cDNA.RAW'
arrayQC.plot : Mnu.MvA.plot.handler: no visible binding for global
  variable 'cDNA.RAW'
arrayQC.plot : Mnu.MvA.plot.handler: no visible binding for global
  variable 'cDNA.RAW'
arrayQC.plot : Mnu.MvA.plot.handler: no visible binding for global
  variable 'cDNA.RAW'
arrayQC.plot : Mnu.MvA.plot.handler: no visible binding for global
  variable 'exp.info'
arrayQC.plot : Mnu.Scatter.Red.plot.handler: no visible binding for
  global variable 'Raw.flag'
arrayQC.plot : Mnu.Scatter.Red.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Scatter.Red.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Scatter.Red.plot.handler: no visible binding for
  global variable 'cDNA.RAW'
arrayQC.plot : Mnu.Scatter.Red.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Scatter.Red.plot.handler: no visible binding for
  global variable 'chip.info'
arrayQC.plot : Mnu.Scatter.Red.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Scatter.Green.plot.handler: no visible binding for
  global variable 'Raw.flag'
arrayQC.plot : Mnu.Scatter.Green.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Scatter.Green.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Scatter.Green.plot.handler: no visible binding for
  global variable 'cDNA.RAW'
arrayQC.plot : Mnu.Scatter.Green.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Scatter.Green.plot.handler: no visible binding for
  global variable 'chip.info'
arrayQC.plot : Mnu.Scatter.Green.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Scatter.Ratio.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Scatter.Ratio.plot.handler: no visible binding for
  global variable 'Normalization.flag'
arrayQC.plot : Mnu.Scatter.Ratio.plot.handler: no visible binding for
  global variable 'Raw.flag'
arrayQC.plot : Mnu.Scatter.Ratio.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Scatter.Ratio.plot.handler: no visible binding for
  global variable 'cDNA.Norm'
arrayQC.plot : Mnu.Scatter.Ratio.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Scatter.Ratio.plot.handler: no visible binding for
  global variable 'cDNA.Norm.input'
arrayQC.plot : Mnu.Scatter.Ratio.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Scatter.Ratio.plot.handler: no visible binding for
  global variable 'chip.info'
arrayQC.plot : Mnu.Scatter.Ratio.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Correlation.plot.handler: no visible binding for
  global variable 'Raw.flag'
arrayQC.plot : Mnu.Correlation.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Diagnostic.plot.handler: no visible binding for
  global variable 'Raw.flag'
arrayQC.plot : Mnu.Diagnostic.plot.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.chipwise.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.chipwise.plot.handler: no visible binding for global
  variable 'cDNA.Norm.input'
arrayQC.plot : Mnu.chipwise.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.chipwise.plot.handler: no visible binding for global
  variable 'chip.info'
arrayQC.plot : Mnu.chipwise.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.chipwise.plot.handler: no visible binding for global
  variable 'chip.info'
arrayQC.plot : Mnu.chipwise.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.chipwise.plot.handler: no visible binding for global
  variable 'chip.info'
arrayQC.plot : Mnu.summary.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.summary.plot.handler: no visible binding for global
  variable 'cDNA.Norm.input'
arrayQC.plot : Mnu.summary.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.summary.plot.handler: no visible binding for global
  variable 'chip.info'
arrayQC.plot : Mnu.summary.plot.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'exp.info'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'Normalization.flag'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'cDNA.Norm.input'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'cDNA.Norm'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'chip.info'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'exp.info'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'chip.info'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'new.text'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'outputText'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'new.text'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for '<<-'
  assignment to 'Result.Save'
arrayQC.plot : Mnu.Corr1.test.handler: no visible binding for global
  variable 'Result.Save'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'exp.info'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'Normalization.flag'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'cDNA.Norm.input'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'cDNA.Norm'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'chip.info'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'exp.info'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'chip.info'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'high.chip.list'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'new.text'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'outputText'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'new.text'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for '<<-'
  assignment to 'Result.Save'
arrayQC.plot : Mnu.Corr2.test.handler: no visible binding for global
  variable 'Result.Save'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'exp.info'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'Raw.flag'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'cDNA.Norm.input'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'cDNA.Norm'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'cDNA.Norm'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'exp.info'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'Raw.flag'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'Raw.flag'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'exp.info'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'Raw.flag'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'exp.info'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'high.chip.list'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'Raw.flag'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'cDNA.Norm.input'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'cDNA.RAW'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'new.text'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'outputText'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'new.text'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  '<<-' assignment to 'Result.Save'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'Result.Save'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'new.text'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'outputText'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'new.text'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  '<<-' assignment to 'Result.Save'
arrayQC.plot : Mnu.Intensity.2.test.handler: no visible binding for
  global variable 'Result.Save'
arrayQC.plot : Mnu.Normalization.handler: no visible binding for '<<-'
  assignment to 'Normalization.flag'
arrayQC.plot : plot.dma.qc: no visible binding for global variable
  'high.chip.list'
arrayQC.plot : dmaQC1: no visible binding for global variable
  'cDNA.Norm.input'
arrayQC.plot : dmaQC1: no visible binding for global variable
  'high.chip.list'
arrayQC.plot : dmaQC: no visible binding for global variable
  'high.chip.list'
arrayQC.plot : dmaQC: no visible binding for global variable
  'Normalization.flag'
arrayQC.plot : dmaQC: no visible binding for global variable
  'cDNA.Norm.input'
arrayQC.plot : dmaQC: no visible binding for global variable
  'high.chip.list'
arrayQC.plot : dmaQC: no visible binding for global variable
  'cDNA.Norm'
arrayQC.plot : dmaQC: no visible binding for global variable
  'high.chip.list'
arrayQC.plot : dmaQC: no visible binding for global variable 'cDNA.RAW'
arrayQC.plot : dmaQC: no visible binding for global variable
  'high.chip.list'
arrayQC.plot : dmaQC: no visible binding for global variable 'cDNA.RAW'
arrayQC.plot : dmaQC: no visible binding for global variable
  'high.chip.list'
arrayQC.plot : dmaQC: no visible binding for global variable 'cDNA.RAW'
arrayQC.plot : dmaQC: no visible binding for global variable
  'high.chip.list'
arrayQC.plot : dmaQC: no visible binding for global variable 'cDNA.RAW'
arrayQC.plot : dmaQC: no visible binding for global variable
  'high.chip.list'
arrayQC.plot : GPnorm.gtk: no visible binding for global variable
  'Raw.flag'
arrayQC.plot : GPnorm.gtk: no visible binding for global variable
  'cDNA.RAW'
arrayQC.plot : GPnorm.gtk: no visible binding for global variable
  'cDNA.RAW'
arrayQC.plot : GPnorm.gtk : <anonymous>: no visible binding for '<<-'
  assignment to 'cDNA.Norm'
arrayQC.plot : GPnorm.gtk : <anonymous>: no visible binding for '<<-'
  assignment to 'cDNA.Norm'
arrayQC.plot: no visible binding for '<<-' assignment to 'main'
arrayQC.plot: no visible binding for global variable 'main'
arrayQC.plot: no visible binding for global variable 'main'
arrayQC.plot: no visible binding for global variable 'main'
arrayQC.plot: no visible binding for global variable 'main'
arrayQC.plot: no visible binding for '<<-' assignment to 'geneList'
arrayQC.plot: no visible binding for global variable 'geneList'
arrayQC.plot: no visible binding for global variable 'geneList'
arrayQC.plot: no visible binding for global variable 'geneList'
arrayQC.plot: no visible binding for global variable 'geneList'
arrayQC.plot: no visible binding for global variable 'geneList'
arrayQC.plot: no visible binding for global variable 'geneList'
arrayQC.plot: no visible binding for '<<-' assignment to 'outputText'
arrayQC.plot: no visible binding for global variable 'outputText'
arrayQC.plot: no visible binding for '<<-' assignment to 'new.text'
arrayQC.plot: no visible binding for '<<-' assignment to 'chipList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'geneList'
arrayQC.plot: no visible binding for global variable 'outputText'
arrayQC.plot: no visible binding for global variable 'geneList'
arrayQC.plot: no visible binding for global variable 'geneList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'chipList'
arrayQC.plot: no visible binding for global variable 'main'
arrayQC.plot: no visible binding for global variable 'main'
Found possibly global 'T' or 'F' in the following function:
  arrayQC.plot
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* creating arrayQCplot-Ex.R ... OK
* checking examples ... OK
* creating arrayQCplot-manual.tex ... OK
* checking arrayQCplot-manual.tex ... OK

arrayQCplot.Rcheck/00install.out:

* Installing *source* package 'arrayQCplot' ...
** R
** inst
** preparing package for lazy loading
Loading required package: RGtk2
Loading required package: cairoDevice
Loading required package: LPE
** help
 >>> Building/Updating help pages for package 'arrayQCplot'
     Formats: text html latex example 
  arrayQC.plot                      text    html    latex   example
** building package indices ...
* DONE (arrayQCplot)