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CHECK report for mcaGUI on tokay2

This page was generated on 2018-10-17 08:35:17 -0400 (Wed, 17 Oct 2018).

Package 846/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
mcaGUI 1.28.1
Wade K. Copeland
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/mcaGUI
Branch: RELEASE_3_7
Last Commit: 84e4491
Last Changed Date: 2018-06-19 10:13:21 -0400 (Tue, 19 Jun 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK [ WARNINGS ] OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: mcaGUI
Version: 1.28.1
Command: C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:mcaGUI.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings mcaGUI_1.28.1.tar.gz
StartedAt: 2018-10-17 03:06:48 -0400 (Wed, 17 Oct 2018)
EndedAt: 2018-10-17 03:11:00 -0400 (Wed, 17 Oct 2018)
EllapsedTime: 252.2 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: mcaGUI.Rcheck
Warnings: 1

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:mcaGUI.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings mcaGUI_1.28.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.7-bioc/meat/mcaGUI.Rcheck'
* using R version 3.5.1 Patched (2018-07-24 r75005)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'mcaGUI/DESCRIPTION' ... OK
* this is package 'mcaGUI' version '1.28.1'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package which this enhances but not available for checking: 'iplots'

Depends: includes the non-default packages:
  'lattice' 'MASS' 'proto' 'foreign' 'gWidgets' 'gWidgetsRGtk2'
  'OTUbase' 'vegan' 'bpca'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
* 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 whether package 'mcaGUI' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  'OTUbase'
A package should be listed in only one of these fields.
* 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 dependencies in R code ... NOTE
'library' or 'require' calls to packages already attached by Depends:
  'gWidgets' 'gWidgetsRGtk2' 'lattice'
  Please remove these calls from your code.
Packages in Depends field not imported from:
  'MASS' 'OTUbase' 'bpca' 'foreign' 'gWidgets' 'gWidgetsRGtk2'
  'lattice' 'proto' 'vegan'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
':::' calls which should be '::':
  'gWidgets:::editFormulaDialog' 'utils:::getCRANmirrors'
  See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
File 'mcaGUI/R/zzz.R':
  .onLoad calls:
    cat("Loading mcaGUI()\n")
    print("You can access the mcaGUI vignette by browsing to:  ")
    print(system.file("doc", "An_Introduction_and_User_Guide_for_mcaGUI.pdf",     package = "mcaGUI"))

Package startup functions should use 'packageStartupMessage' to
  generate messages.
See section 'Good practice' in '?.onAttach'.

Found the following possibly unsafe calls:
File 'mcaGUI/R/ibestgui.filemenu.R':
  assignInNamespace("pmg.window", NULL, "ibestGUI")

Loading mcaGUI()
[1] "You can access the mcaGUI vignette by browsing to:  "
[1] ""
GUI requires an interactive environment
getAllPackages: warning in .packages(all = TRUE): partial argument
  match of 'all' to 'all.available'
.editDFProperties : <anonymous>: no visible global function definition
  for 'head'
.editDFProperties : <anonymous>: no visible binding for global variable
  'getType'
.editDFProperties : <anonymous>: no visible global function definition
  for 'ggroup'
.editDFProperties : <anonymous>: no visible global function definition
  for 'glabel'
.editDFProperties : <anonymous>: no visible global function definition
  for 'glayout'
.editDFProperties : <anonymous>: no visible global function definition
  for 'gdroplist'
.editDFProperties : <anonymous>: no visible global function definition
  for 'svalue<-'
.editDFProperties : <anonymous>: no visible global function definition
  for 'gedit'
.editDFProperties : <anonymous>: no visible global function definition
  for 'visible<-'
.editDFProperties : <anonymous>: no visible global function definition
  for 'gseparator'
.editDFProperties : <anonymous>: no visible global function definition
  for 'gdf'
.editDFProperties : <anonymous> : getIndex: no visible global function
  definition for 'svalue'
.editDFProperties : <anonymous>: no visible global function definition
  for 'addHandlerChanged'
.editDFProperties : <anonymous> : <anonymous>: no visible global
  function definition for 'svalue'
.editDFProperties : <anonymous> : updateDF: no visible global function
  definition for 'delete'
.editDFProperties : <anonymous> : updateDF: no visible global function
  definition for 'gdf'
.editDFProperties : <anonymous> : updateDF: no visible global function
  definition for 'head'
.editDFProperties : <anonymous> : updateNames: no visible global
  function definition for 'delete'
.editDFProperties : <anonymous> : updateNames: no visible global
  function definition for 'gdroplist'
.editDFProperties : <anonymous> : updateNames: no visible global
  function definition for 'svalue<-'
.editDFProperties : <anonymous> : updateNames: no visible global
  function definition for 'addHandlerChanged'
.editDFProperties : <anonymous> : updateNames : <anonymous>: no visible
  global function definition for 'svalue'
.editDFProperties : <anonymous> : updateNames : <anonymous>: no visible
  global function definition for 'svalue<-'
.editDFProperties : <anonymous>: no visible global function definition
  for 'svalue'
.editDFProperties : <anonymous>: no visible global function definition
  for 'gconfirm'
.editDFProperties : <anonymous>: no visible global function definition
  for 'dispose'
.newSet : setISetByName: no visible global function definition for
  'iset.list'
.newSet : setISetByName: no visible global function definition for
  'iset.set'
.newSet: no visible global function definition for 'iset.list'
.newSet: no visible global function definition for 'iset.set'
.newSet: no visible global function definition for 'iset.new'
.newSet: no visible global function definition for 'iset.df'
.newSet: no visible global function definition for 'gtable'
.newSet: no visible global function definition for 'adddropsource'
.newSet: no visible global function definition for 'gdroplist'
.newSet: no visible global function definition for 'gimage'
.newSet: no visible global function definition for 'glabel'
.newSet: no visible global function definition for 'gbutton'
.newSet: no visible global function definition for 'gtext'
.newSet: no visible global function definition for 'ggroup'
.newSet: no visible global function definition for 'gpanedgroup'
.newSet: no visible global function definition for 'add'
.newSet: no visible global function definition for 'size<-'
.newSet: no visible global function definition for 'gframe'
.newSet: no visible global function definition for 'addhandlerchanged'
.newSet : <anonymous>: no visible global function definition for
  'svalue'
.newSet : <anonymous>: no visible global function definition for 'ibox'
.newSet : <anonymous>: no visible global function definition for
  'imosaic'
.newSet : <anonymous>: no visible global function definition for 'ipcp'
.newSet : <anonymous>: no visible global function definition for
  'svalue<-'
.newSet: no visible global function definition for 'addhandlerclicked'
.newSet : <anonymous>: no visible global function definition for
  'iset.selected'
.newSet : <anonymous>: no visible global function definition for
  'iset.select'
.newSet : <anonymous>: no visible global function definition for
  'iplot.cur'
.newSet : <anonymous>: no visible global function definition for
  'iplot.list'
.newSet : <anonymous>: no visible global function definition for
  'iplot.set'
.newSet : <anonymous>: no visible global function definition for
  'ggroup'
.newSet : <anonymous>: no visible global function definition for
  'gframe'
.newSet : <anonymous>: no visible global function definition for
  'glabel'
.newSet : <anonymous>: no visible global function definition for
  'adddroptarget'
.newSet : <anonymous>: no visible global function definition for
  'font<-'
.newSet : <anonymous>: no visible global function definition for
  'gcheckbox'
.newSet : <anonymous>: no visible global function definition for
  'gbutton'
.newSet : <anonymous> : addTrendLine: no visible global function
  definition for 'svalue'
.newSet : <anonymous> : addTrendLine: no visible global function
  definition for 'iset.selected'
.newSet : <anonymous> : addTrendLine: no visible global function
  definition for 'lm'
.newSet : <anonymous> : addTrendLine: no visible global function
  definition for 'iabline'
.newSet : <anonymous> : addTrendLine: no visible global function
  definition for 'ilines'
.newSet : <anonymous> : addTrendLine: no visible global function
  definition for 'lowess'
.newSet : <anonymous>: no visible global function definition for
  'gedit'
.newSet : <anonymous> : <anonymous>: no visible global function
  definition for 'svalue'
.newSet : <anonymous>: no visible global function definition for
  'addSpring'
.newSet : <anonymous> : <anonymous>: no visible global function
  definition for 'dispose'
.newSet : <anonymous>: no visible global function definition for
  'iobj.rm'
.newSet : <anonymous>: no visible global function definition for
  'iobj.cur'
.newSet : <anonymous>: no visible global function definition for
  '.jstrVal'
.newSet : getCurrentPlotNameType: no visible global function definition
  for 'iplot.list'
.newSet : getCurrentPlotNameType: no visible global function definition
  for 'iplot.cur'
.newSet : updateCurrentPlotDescription: no visible global function
  definition for 'svalue<-'
OTUbasereader : openHandler: no visible global function definition for
  'visible<-'
OTUbasereader : closeHandler: no visible global function definition for
  'visible<-'
OTUbasereader: no visible global function definition for 'gwindow'
OTUbasereader: no visible global function definition for 'glayout'
OTUbasereader: no visible global function definition for 'glabel'
OTUbasereader: no visible global function definition for 'gedit'
OTUbasereader: no visible global function definition for 'gfilebrowse'
OTUbasereader: no visible global function definition for 'guiToolkit'
OTUbasereader : setwdHandler: no visible global function definition for
  'svalue'
OTUbasereader: no visible global function definition for
  'addHandlerChanged'
OTUbasereader: no visible global function definition for 'gradio'
OTUbasereader: no visible global function definition for 'gbutton'
OTUbasereader : OTUbase: no visible global function definition for
  'svalue'
OTUbasereader : OTUbase: no visible global function definition for
  'svalue<-'
OTUbasereader : OTUbase: no visible binding for '<<-' assignment to
  'OTUset'
OTUbasereader : OTUbase: no visible global function definition for
  'readOTUset'
OTUbasereader : OTUbase: no visible global function definition for
  'aData'
OTUbasereader : OTUbase: no visible global function definition for
  'sData'
OTUbasereader : OTUbase: no visible global function definition for
  'visible<-'
Proportion_Or_Count_Reader : .readRDP: no visible global function
  definition for 'read.table'
Proportion_Or_Count_Reader : openHandler: no visible global function
  definition for 'visible<-'
Proportion_Or_Count_Reader : closeHandler: no visible global function
  definition for 'visible<-'
Proportion_Or_Count_Reader: no visible global function definition for
  'gwindow'
Proportion_Or_Count_Reader: no visible global function definition for
  'glayout'
Proportion_Or_Count_Reader: no visible global function definition for
  'glabel'
Proportion_Or_Count_Reader: no visible global function definition for
  'gedit'
Proportion_Or_Count_Reader: no visible global function definition for
  'gfilebrowse'
Proportion_Or_Count_Reader: no visible global function definition for
  'guiToolkit'
Proportion_Or_Count_Reader: no visible global function definition for
  'gradio'
Proportion_Or_Count_Reader: no visible global function definition for
  'gbutton'
Proportion_Or_Count_Reader : createAbundanceTable: no visible global
  function definition for 'svalue'
Proportion_Or_Count_Reader : createAbundanceTable: no visible global
  function definition for 'read.table'
Proportion_Or_Count_Reader : createAbundanceTable: no visible binding
  for global variable 'Sample_Data'
Proportion_Or_Count_Reader : createAbundanceTable: no visible binding
  for global variable 'collab2'
Proportion_Or_Count_Reader: no visible global function definition for
  'addHandlerClicked'
Proportion_Or_Count_Reader : new.window : closeHandler2: no visible
  global function definition for 'visible<-'
Proportion_Or_Count_Reader : new.window: no visible global function
  definition for 'gwindow'
Proportion_Or_Count_Reader : new.window: no visible global function
  definition for 'glayout'
Proportion_Or_Count_Reader : new.window: no visible global function
  definition for 'glabel'
Proportion_Or_Count_Reader : new.window: no visible global function
  definition for 'gedit'
Proportion_Or_Count_Reader : new.window: no visible global function
  definition for 'gfilebrowse'
Proportion_Or_Count_Reader : new.window: no visible global function
  definition for 'guiToolkit'
Proportion_Or_Count_Reader : new.window: no visible global function
  definition for 'gradio'
Proportion_Or_Count_Reader : new.window : createAssignmentData: no
  visible global function definition for 'svalue'
Proportion_Or_Count_Reader : new.window : createAssignmentData: no
  visible global function definition for 'read.table'
Proportion_Or_Count_Reader : new.window : createAssignmentData: no
  visible global function definition for 'glabel'
Proportion_Or_Count_Reader : new.window : createAssignmentData: no
  visible binding for '<<-' assignment to 'collab2'
Proportion_Or_Count_Reader : new.window : createAssignmentData: no
  visible global function definition for 'gdroplist'
Proportion_Or_Count_Reader : new.window: no visible global function
  definition for 'gbutton'
Proportion_Or_Count_Reader : new.window: no visible global function
  definition for 'addHandlerClicked'
RSiteSearch.Dialog: no visible global function definition for 'glayout'
RSiteSearch.Dialog: no visible global function definition for 'ggroup'
RSiteSearch.Dialog: no visible global function definition for 'glabel'
RSiteSearch.Dialog: no visible global function definition for 'gedit'
RSiteSearch.Dialog: no visible global function definition for
  'gdroplist'
RSiteSearch.Dialog: no visible global function definition for
  'gspinbutton'
RSiteSearch.Dialog: no visible global function definition for
  'visible<-'
RSiteSearch.Dialog: no visible global function definition for 'add'
RSiteSearch.Dialog: no visible global function definition for
  'gseparator'
RSiteSearch.Dialog: no visible global function definition for
  'addSpring'
RSiteSearch.Dialog: no visible global function definition for 'gbutton'
RSiteSearch.Dialog : <anonymous>: no visible global function definition
  for 'dispose'
RSiteSearch.Dialog: no visible global function definition for
  'addhandlerclicked'
RSiteSearch.Dialog : <anonymous>: no visible global function definition
  for 'svalue'
RSiteSearch.Dialog : <anonymous>: no visible global function definition
  for 'RSiteSearch'
as.dLatticeExplorer: no visible global function definition for 'tag'
bootstrap : norm.inter: no visible global function definition for
  'qnorm'
bootstrap : bca.mean: no visible global function definition for 'var'
bootstrap : bca.mean: no visible global function definition for 'qnorm'
bootstrap : bca.mean: no visible global function definition for 'pnorm'
bootstrap : bca.mean: no visible global function definition for
  'dev.new'
bootstrap : bca.mean: no visible global function definition for 'hist'
bootstrap : bca.median: no visible global function definition for 'var'
bootstrap : bca.median: no visible global function definition for
  'qnorm'
bootstrap : bca.median: no visible global function definition for
  'pnorm'
bootstrap : bca.median: no visible global function definition for
  'dev.new'
bootstrap : bca.median: no visible global function definition for
  'hist'
bootstrap : bca.sd: no visible global function definition for 'var'
bootstrap : bca.sd: no visible global function definition for 'qnorm'
bootstrap : bca.sd: no visible global function definition for 'pnorm'
bootstrap : bca.sd: no visible global function definition for 'dev.new'
bootstrap : bca.sd: no visible global function definition for 'hist'
bootstrap : bca.cv: no visible global function definition for 'var'
bootstrap : bca.cv: no visible global function definition for 'qnorm'
bootstrap : bca.cv: no visible global function definition for 'pnorm'
bootstrap : bca.cv: no visible global function definition for 'dev.new'
bootstrap : bca.cv: no visible global function definition for 'hist'
checkForUpdates: no visible global function definition for
  'old.packages'
checkForUpdatesGUI: no visible global function definition for 'ggroup'
checkForUpdatesGUI: no visible global function definition for 'glabel'
checkForUpdatesGUI: no visible global function definition for
  'gstatusbar'
checkForUpdatesGUI: no visible global function definition for
  'visible<-'
checkForUpdatesGUI: no visible global function definition for
  'svalue<-'
clearPanel: no visible global function definition for 'tag'
clearPanel: no visible global function definition for 'tag<-'
clearPlot: no visible global function definition for 'tag<-'
clearPlot: no visible global function definition for 'tag'
clearPlot: no visible global function definition for 'removehandler'
clearPlot: no visible global function definition for 'svalue<-'
cluster: no visible global function definition for 'vegdist'
cluster: no visible global function definition for 'hclust'
cluster: no visible global function definition for 'plot'
constructionOfNormal: no visible global function definition for
  'gwindow'
constructionOfNormal : updatePlot: no visible global function
  definition for 'svalue'
constructionOfNormal : updatePlot: no visible global function
  definition for 'hist'
constructionOfNormal : updatePlot: no visible global function
  definition for 'plot'
constructionOfNormal : updatePlot: no visible global function
  definition for 'curve'
constructionOfNormal : updatePlot: no visible global function
  definition for 'dnorm'
constructionOfNormal : updatePlot: no visible binding for global
  variable 'x'
constructionOfNormal : updatePlot: no visible global function
  definition for 'sd'
constructionOfNormal: no visible global function definition for
  'gdroplist'
constructionOfNormal: no visible global function definition for
  'addhandlerchanged'
constructionOfNormal : <anonymous>: no visible global function
  definition for 'svalue'
constructionOfNormal : <anonymous>: no visible global function
  definition for 'svalue<-'
constructionOfNormal : <anonymous>: no visible global function
  definition for 'enabled<-'
constructionOfNormal: no visible global function definition for
  'glabel'
constructionOfNormal: no visible global function definition for 'gedit'
constructionOfNormal: no visible global function definition for
  'gcheckbox'
constructionOfNormal: no visible global function definition for
  'ggroup'
constructionOfNormal: no visible global function definition for
  'gframe'
constructionOfNormal: no visible global function definition for
  'glayout'
constructionOfNormal: no visible global function definition for
  'visible<-'
constructionOfNormal: no visible global function definition for 'add'
constructionOfNormal: no visible global function definition for
  'addSpring'
constructionOfNormal: no visible global function definition for
  'gbutton'
constructionOfNormal : <anonymous>: no visible global function
  definition for 'dispose'
constructionOfNormal: no visible global function definition for
  'ggraphics'
dLatticeExplorer: no visible global function definition for 'ggroup'
dLatticeExplorer: no visible global function definition for 'ggraphics'
dLatticeExplorer: no visible global function definition for 'tag<-'
dLatticeExplorer: no visible global function definition for 'add'
dLatticeExplorer: no visible global function definition for 'gframe'
dLatticeExplorer : handler: no visible global function definition for
  'tag'
dLatticeExplorer : handler: no visible global function definition for
  'tag<-'
dLatticeExplorer : handler: no visible global function definition for
  'addhandlerchanged'
dLatticeExplorer: no visible global function definition for
  'adddroptarget'
dLatticeExplorer: no visible global function definition for 'gbutton'
dLatticeExplorer : <anonymous>: no visible global function definition
  for 'svalue<-'
dLatticeExplorer: no visible global function definition for 'addSpring'
dLatticeExplorer: no visible global function definition for 'gdroplist'
dLatticeExplorer : <anonymous>: no visible global function definition
  for 'svalue'
dLatticeExplorer : <anonymous>: no visible global function definition
  for 'tag<-'
dLatticeExplorer: no visible global function definition for 'svalue<-'
dLatticeExplorer: no visible global function definition for 'glabel'
dLatticeExplorer: no visible global function definition for
  'gseparator'
dLatticeExplorer: no visible global function definition for
  'gcheckboxgroup'
dLatticeExplorer: no visible global function definition for
  'addhandlerunrealize'
dSummaryDialog: no visible global function definition for 'ggroup'
dSummaryDialog: no visible global function definition for 'tag<-'
dSummaryDialog: no visible global function definition for 'glayout'
dSummaryDialog: no visible global function definition for 'glabel'
dSummaryDialog: no visible global function definition for 'font<-'
dSummaryDialog: no visible global function definition for 'enabled<-'
dSummaryDialog: no visible global function definition for 'add'
dSummaryDialog: no visible global function definition for 'visible<-'
dSummaryDialog: no visible global function definition for 'addSpring'
dSummaryDialog: no visible global function definition for 'gbutton'
dSummaryDialog: no visible global function definition for 'gdroplist'
dSummaryDialog: no visible global function definition for 'gseparator'
dSummaryDialog: no visible global function definition for 'gtext'
dSummaryDialog: no visible global function definition for
  'addhandlerchanged'
dSummaryDialog : <anonymous>: no visible global function definition for
  'tag'
dSummaryDialog : <anonymous>: no visible global function definition for
  'removehandler'
dSummaryDialog : <anonymous>: no visible global function definition for
  'tag<-'
dSummaryDialog : <anonymous>: no visible global function definition for
  'svalue'
dSummaryDialog: no visible global function definition for
  'adddroptarget'
dSummaryDialog : <anonymous>: no visible global function definition for
  'svalue<-'
dSummaryDialog : <anonymous>: no visible global function definition for
  'addhandlerchanged'
dSummaryDialog : <anonymous>: no visible global function definition for
  'enabled<-'
dSummaryDialog : clear: no visible global function definition for
  'svalue<-'
dSummaryDialog : clear: no visible global function definition for
  'dispose'
dSummaryDialog : clear: no visible global function definition for
  'tag<-'
dSummaryDialog : update: no visible global function definition for
  'tag'
dSummaryDialog : update: no visible global function definition for
  'svalue'
dSummaryDialog : update: no visible global function definition for 'id'
dSummaryDialog : update: no visible global function definition for
  'capture.output'
dSummaryDialog : update: no visible global function definition for
  'dispose'
dSummaryDialog : update: no visible global function definition for
  'add'
dSummaryDialog : clearDropHandlers: no visible global function
  definition for 'tag'
dSummaryDialog : clearDropHandlers: no visible global function
  definition for 'removehandler'
dSummaryDialog: no visible global function definition for
  'addhandlerunrealize'
diversityfun: no visible global function definition for 'diversity'
dp: no visible global function definition for 'gray'
dp: no visible global function definition for 'png'
dp: no visible global function definition for 'par'
dp: no visible global function definition for 'plot.new'
dp: no visible global function definition for 'plot.window'
dp: no visible global function definition for 'text'
dp: no visible global function definition for 'density'
dp: no visible global function definition for 'plot'
dp: no visible global function definition for 'rug'
dp: no visible global function definition for 'polygon'
dp: no visible global function definition for 'dev.off'
dpqrfuncs: no visible global function definition for 'ggroup'
dpqrfuncs: no visible global function definition for 'glabel'
dpqrfuncs: no visible global function definition for 'gdroplist'
dpqrfuncs: no visible global function definition for 'gedit'
dpqrfuncs: no visible global function definition for 'gcheckbox'
dpqrfuncs: no visible global function definition for 'gtext'
dpqrfuncs: no visible global function definition for 'glayout'
dpqrfuncs: no visible global function definition for 'addSpring'
dpqrfuncs: no visible global function definition for 'gbutton'
dpqrfuncs: no visible global function definition for 'visible<-'
dpqrfuncs: no visible global function definition for
  'addhandlerchanged'
dpqrfuncs : <anonymous>: no visible global function definition for
  'svalue'
dpqrfuncs : <anonymous>: no visible global function definition for
  'svalue<-'
dpqrfuncs : <anonymous>: no visible global function definition for
  'enabled<-'
dpqrfuncs : <anonymous>: no visible global function definition for
  'ghelp'
exit.pmg: no visible global function definition for 'assignInNamespace'
getAllVignettes: no visible global function definition for 'vignette'
getCranSiteIfNeeded : handler: no visible global function definition
  for 'svalue'
getCranSiteIfNeeded: no visible global function definition for 'ggroup'
getCranSiteIfNeeded: no visible global function definition for 'glabel'
getCranSiteIfNeeded: no visible global function definition for 'gtable'
getCranSiteIfNeeded: no visible global function definition for 'size<-'
getCranSiteIfNeeded: no visible global function definition for
  'gbasicdialog'
getDataSets: no visible global function definition for 'data'
histogramAndDensity: no visible global function definition for
  'gwindow'
histogramAndDensity : updatePlot: no visible global function definition
  for 'plot.new'
histogramAndDensity : updatePlot: no visible global function definition
  for 'plot.window'
histogramAndDensity : updatePlot: no visible global function definition
  for 'svalue'
histogramAndDensity : updatePlot: no visible global function definition
  for 'hist'
histogramAndDensity : updatePlot: no visible global function definition
  for 'plot'
histogramAndDensity : addDensity: no visible global function definition
  for 'svalue'
histogramAndDensity : addDensity: no visible global function definition
  for 'curve'
histogramAndDensity : addDensity: no visible binding for global
  variable 'x'
histogramAndDensity: no visible global function definition for
  'gdroplist'
histogramAndDensity: no visible global function definition for
  'addhandlerchanged'
histogramAndDensity : <anonymous>: no visible global function
  definition for 'svalue'
histogramAndDensity : <anonymous>: no visible global function
  definition for 'svalue<-'
histogramAndDensity : <anonymous>: no visible global function
  definition for 'enabled<-'
histogramAndDensity: no visible global function definition for 'gradio'
histogramAndDensity: no visible global function definition for
  'gcheckbox'
histogramAndDensity: no visible global function definition for 'glabel'
histogramAndDensity: no visible global function definition for 'gedit'
histogramAndDensity: no visible global function definition for 'ggroup'
histogramAndDensity: no visible global function definition for 'gframe'
histogramAndDensity: no visible global function definition for
  'glayout'
histogramAndDensity: no visible global function definition for
  'visible<-'
histogramAndDensity: no visible global function definition for 'add'
histogramAndDensity: no visible global function definition for
  'addSpring'
histogramAndDensity: no visible global function definition for
  'gbutton'
histogramAndDensity : <anonymous>: no visible global function
  definition for 'dispose'
histogramAndDensity: no visible global function definition for
  'ggraphics'
importFile : <anonymous>: no visible binding for global variable
  'svalue'
importFile : <anonymous>: no visible global function definition for
  'svalue'
importFile : <anonymous>: no visible global function definition for
  'gconfirm'
importFile : <anonymous>: no visible global function definition for
  'dispose'
importFile : <anonymous>: no visible global function definition for
  'gedit'
importFile : <anonymous>: no visible global function definition for
  'ggroup'
importFile : <anonymous>: no visible global function definition for
  'glabel'
importFile : <anonymous>: no visible global function definition for
  'glayout'
importFile : <anonymous>: no visible global function definition for
  'visible<-'
importFile : <anonymous>: no visible global function definition for
  'gframe'
importFile : <anonymous>: no visible global function definition for
  'gdroplist'
importFile : <anonymous>: no visible global function definition for
  'gspinbutton'
importFile : <anonymous> : makePreview: no visible binding for global
  variable 'svalue'
importFile : <anonymous> : makePreview: no visible global function
  definition for 'delete'
importFile : <anonymous> : makePreview: no visible global function
  definition for 'ggroup'
importFile : <anonymous> : makePreview: no visible global function
  definition for 'gdf'
importFile : <anonymous> : <anonymous>: no visible global function
  definition for 'addHandlerChanged'
is.RGtkObject: no visible global function definition for 'is'
is.gComponent: no visible global function definition for 'is'
is.gContainer: no visible global function definition for 'is'
is.gGrid: no visible global function definition for 'is'
is.gImage: no visible global function definition for 'is'
is.gLabel: no visible global function definition for 'is'
is.gMenu: no visible global function definition for 'is'
is.gWidget: no visible global function definition for 'is'
is.gWindow: no visible global function definition for 'is'
is.guiWidget: no visible global function definition for 'is'
kurtosis.default: no visible global function definition for 'var'
lsDatasets: no visible global function definition for '.GlobalEnv'
lsFunctions: no visible global function definition for '.GlobalEnv'
lsModels: no visible global function definition for '.GlobalEnv'
lsTs: no visible global function definition for '.GlobalEnv'
makeEmptyPlot: no visible global function definition for 'plot.new'
makeEmptyPlot: no visible global function definition for 'plot.window'
makeEmptyPlot: no visible global function definition for 'text'
mcaGUI: no visible global function definition for 'assignInNamespace'
mcaGUI: no visible global function definition for 'size<-'
mcaGUI: no visible global function definition for 'gmenu'
mcaGUI: no visible global function definition for 'gnotebook'
mcaGUI: no visible global function definition for 'gstatusbar'
mcaGUI: no visible global function definition for 'ggroup'
mcaGUI: no visible global function definition for 'add'
mcaGUI: no visible binding for global variable 'pmg.user.menu'
mcaGUI: no visible binding for global variable 'pmg.menubar'
mcaGUI: no visible global function definition for 'gvarbrowser'
mcaGUI : <anonymous>: no visible global function definition for
  'svalue'
mcaGUI : <anonymous>: no visible global function definition for 'add'
mcaGUI: no visible global function definition for 'gexpandgroup'
mcaGUI: no visible global function definition for 'visible<-'
mcaGUI: no visible global function definition for 'gpanedgroup'
mcaGUI : <anonymous>: no visible global function definition for
  'dispose'
mcaGUI : <anonymous>: no visible global function definition for
  'assignInNamespace'
mcaGUI : <anonymous>: no visible global function definition for 'gfile'
mcaGUI : <anonymous>: no visible global function definition for
  'ggraphicsnotebook'
mcaGUI : <anonymous>: no visible global function definition for
  'focus<-'
mcaGUI : <anonymous>: no visible global function definition for
  'ghelpbrowser'
mcaGUI: no visible global function definition for 'gtoolbar'
mcaGUI: no visible global function definition for 'gimage'
mcaGUI: no visible global function definition for 'addSpace'
mcaGUI: no visible global function definition for 'gseparator'
mcaGUI: no visible global function definition for 'addSpring'
mcaGUI: no visible global function definition for 'adddroptarget'
mcaGUI : <anonymous>: no visible global function definition for
  'svalue<-'
mcaGUI: no visible binding for '<<-' assignment to 'send'
mcaGUI: no visible global function definition for 'gcommandline'
mcaGUI : pmg.data.frame.viewer.nb: no visible global function
  definition for 'gtext'
panel.mean: no visible global function definition for 'panel.abline'
panel.median: no visible global function definition for 'panel.abline'
panel.median: no visible global function definition for 'median'
plotecdf: no visible global function definition for 'plot'
plotecdf: no visible global function definition for 'ecdf'
pmg.about: no visible global function definition for 'ggroup'
pmg.about: no visible global function definition for 'size<-'
pmg.about: no visible global function definition for 'glabel'
pmg.about: no visible global function definition for 'addSpring'
pmg.about: no visible global function definition for 'gbutton'
pmg.about.R: no visible global function definition for 'ggroup'
pmg.about.R: no visible global function definition for 'gimage'
pmg.about.R: no visible global function definition for 'glabel'
pmg.add: no visible global function definition for 'add'
pmg.addMenubar: no visible global function definition for 'add'
pmg.castGUI: no visible global function definition for 'ggroup'
pmg.castGUI: no visible global function definition for 'gedit'
pmg.castGUI: no visible global function definition for 'gtable'
pmg.castGUI: no visible global function definition for 'adddropsource'
pmg.castGUI : <anonymous>: no visible global function definition for
  'svalue'
pmg.castGUI: no visible global function definition for 'glabel'
pmg.castGUI: no visible global function definition for 'font<-'
pmg.castGUI: no visible global function definition for 'gdroplist'
pmg.castGUI: no visible global function definition for 'gbutton'
pmg.castGUI: no visible global function definition for 'glayout'
pmg.castGUI: no visible global function definition for 'visible<-'
pmg.castGUI: no visible global function definition for 'add'
pmg.castGUI: no visible global function definition for 'gseparator'
pmg.castGUI: no visible global function definition for 'gexpandgroup'
pmg.castGUI : getCast: no visible global function definition for
  'svalue'
pmg.castGUI : getCast: no visible global function definition for
  'as.formula'
pmg.castGUI : cleanPreview: no visible global function definition for
  'delete'
pmg.castGUI : cleanPreview: no visible global function definition for
  'glabel'
pmg.castGUI : cleanPreview: no visible global function definition for
  'add'
pmg.castGUI: no visible global function definition for
  'addhandlerchanged'
pmg.castGUI : <anonymous>: no visible global function definition for
  'gmessage'
pmg.castGUI : <anonymous>: no visible global function definition for
  'svalue<-'
pmg.castGUI : formulaDropHandler: no visible global function definition
  for 'svalue'
pmg.castGUI : formulaDropHandler: no visible global function definition
  for 'svalue<-'
pmg.castGUI: no visible global function definition for 'adddroptarget'
pmg.castGUI : updateHandler: no visible global function definition for
  'gmessage'
pmg.castGUI : updateHandler: no visible global function definition for
  'delete'
pmg.castGUI : updateHandler: no visible global function definition for
  'gtable'
pmg.castGUI : updateHandler: no visible global function definition for
  'head'
pmg.castGUI : updateHandler: no visible global function definition for
  'add'
pmg.castGUI : updateHandler: no visible global function definition for
  'enabled<-'
pmg.castGUI : clearFormulaHandler: no visible global function
  definition for 'svalue<-'
pmg.castGUI : clearFormulaHandler: no visible global function
  definition for 'delete'
pmg.castGUI : clearFormulaHandler: no visible global function
  definition for 'glabel'
pmg.castGUI : clearFormulaHandler: no visible global function
  definition for 'add'
pmg.castGUI : editSubsetHandler: no visible global function definition
  for 'svalue'
pmg.castGUI : editSubsetHandler: no visible global function definition
  for 'gmessage'
pmg.castGUI : editSubsetHandler: no visible global function definition
  for 'editSubsetDialog'
pmg.castGUI : saveAsHandler: no visible global function definition for
  'gmessage'
pmg.castGUI : saveAsHandler: no visible global function definition for
  'svalue'
pmg.castGUI : saveAsHandler: no visible global function definition for
  'gconfirm'
pmg.castGUI : saveAsHandler: no visible global function definition for
  'enabled<-'
pmg.chooseCRANmirror: no visible global function definition for
  'read.csv'
pmg.chooseCRANmirror: no visible global function definition for
  'size<-'
pmg.chooseCRANmirror: no visible global function definition for
  'ggroup'
pmg.chooseCRANmirror: no visible global function definition for
  'gtable'
pmg.chooseCRANmirror : <anonymous>: no visible global function
  definition for 'svalue'
pmg.chooseCRANmirror : <anonymous>: no visible global function
  definition for 'dispose'
pmg.chooseCRANmirror: no visible global function definition for 'add'
pmg.chooseCRANmirror: no visible global function definition for
  'gstatusbar'
pmg.chooseCRANmirror: no visible global function definition for
  'visible<-'
pmg.closeAll: no visible global function definition for
  'getFromNamespace'
pmg.closeAll: no visible global function definition for 'dispose'
pmg.closeAll: no visible global function definition for
  'assignInNamespace'
pmg.edit.dataframe.properties.dialog: no visible global function
  definition for 'ggroup'
pmg.edit.dataframe.properties.dialog: no visible global function
  definition for 'add'
pmg.edit.dataframe.properties.dialog: no visible global function
  definition for 'glabel'
pmg.edit.dataframe.properties.dialog: no visible global function
  definition for 'gseparator'
pmg.edit.dataframe.properties.dialog: no visible global function
  definition for 'glayout'
pmg.edit.dataframe.properties.dialog : selHandler: no visible global
  function definition for 'svalue'
pmg.edit.dataframe.properties.dialog: no visible global function
  definition for 'gdroplist'
pmg.edit.dataframe.properties.dialog: no visible global function
  definition for 'gbutton'
pmg.edit.dataframe.properties.dialog: no visible global function
  definition for 'visible<-'
pmg.eval: no visible global function definition for 'svalue<-'
pmg.getCRANPackages: no visible global function definition for
  'installed.packages'
pmg.getCRANPackages: no visible global function definition for
  'available.packages'
pmg.gw: no visible global function definition for 'ggenericwidget'
pmg.gw: no visible global function definition for 'ggroup'
pmg.gw: no visible global function definition for 'add'
pmg.help: no visible global function definition for 'assignInNamespace'
pmg.help: no visible global function definition for 'ghelpbrowser'
pmg.help: no visible global function definition for 'focus<-'
pmg.help: no visible global function definition for 'add'
pmg.installCRANPackage : addPackageList: no visible global function
  definition for 'svalue<-'
pmg.installCRANPackage : addPackageList: no visible global function
  definition for 'svalue'
pmg.installCRANPackage : addPackageList: no visible global function
  definition for 'enabled<-'
pmg.installCRANPackage: no visible global function definition for
  'ggroup'
pmg.installCRANPackage: no visible global function definition for
  'glayout'
pmg.installCRANPackage: no visible global function definition for
  'glabel'
pmg.installCRANPackage: no visible global function definition for
  'gedit'
pmg.installCRANPackage : <anonymous>: no visible global function
  definition for 'svalue'
pmg.installCRANPackage: no visible global function definition for
  'gbutton'
pmg.installCRANPackage: no visible global function definition for
  'addhandlerclicked'
pmg.installCRANPackage : <anonymous>: no visible global function
  definition for 'svalue<-'
pmg.installCRANPackage: no visible global function definition for
  'gdroplist'
pmg.installCRANPackage : <anonymous>: no visible global function
  definition for 'gfile'
pmg.installCRANPackage : <anonymous> : <anonymous>: no visible global
  function definition for 'svalue<-'
pmg.installCRANPackage : <anonymous> : <anonymous>: no visible global
  function definition for 'svalue'
pmg.installCRANPackage: no visible global function definition for
  'gstatusbar'
pmg.installCRANPackage : <anonymous>: no visible global function
  definition for 'install.packages'
pmg.installCRANPackage: no visible global function definition for
  'enabled<-'
pmg.installCRANPackage : <anonymous>: no visible global function
  definition for 'dispose'
pmg.installCRANPackage: no visible global function definition for 'add'
pmg.installCRANPackage: no visible global function definition for
  'gtable'
pmg.installCRANPackage: no visible global function definition for
  'size<-'
pmg.installCRANPackage: no visible global function definition for
  'visible<-'
pmg.installCRANPackage: no visible global function definition for
  'gseparator'
pmg.installCRANPackage: no visible global function definition for
  'addSpring'
pmg.iplots: no visible global function definition for 'ggroup'
pmg.iplots : <anonymous>: no visible global function definition for
  'dispose'
pmg.iplots: no visible global function definition for 'gtoolbar'
pmg.iplots: no visible global function definition for 'gnotebook'
pmg.iplots: no visible global function definition for 'add'
pmg.iplots: no visible global function definition for 'size<-'
pmg.iplots : addNewDF: no visible global function definition for
  'ggroup'
pmg.iplots : addNewDF: no visible global function definition for 'add'
pmg.iplots : addNewDF: no visible global function definition for
  'glabel'
pmg.iplots : addNewDF: no visible global function definition for
  'gtable'
pmg.iplots : addNewDF: no visible global function definition for
  'addhandlerdoubleclick'
pmg.iplots : addNewDF : <anonymous>: no visible global function
  definition for 'svalue'
pmg.iplots : addNewDF : <anonymous>: no visible global function
  definition for 'add'
pmg.iplots : addNewDF : <anonymous>: no visible global function
  definition for 'dispose'
pmg.iplots : addNewDF: no visible global function definition for
  'gmessage'
pmg.loadPackages: no visible global function definition for 'size<-'
pmg.loadPackages: no visible global function definition for 'ggroup'
pmg.loadPackages : packageHandler: no visible global function
  definition for 'svalue'
pmg.loadPackages : packageHandler: no visible global function
  definition for 'svalue<-'
pmg.loadPackages: no visible global function definition for 'gtable'
pmg.loadPackages: no visible global function definition for 'addSpring'
pmg.loadPackages: no visible global function definition for 'gbutton'
pmg.loadPackages : <anonymous>: no visible global function definition
  for 'dispose'
pmg.loadPackages: no visible global function definition for
  'gstatusbar'
pmg.meltGUI : getMeltedObject: no visible global function definition
  for 'svalue'
pmg.meltGUI : getMeltedObject: no visible global function definition
  for 'gmessage'
pmg.meltGUI: no visible global function definition for 'ggroup'
pmg.meltGUI: no visible global function definition for 'glabel'
pmg.meltGUI: no visible global function definition for 'glayout'
pmg.meltGUI: no visible global function definition for 'gedit'
pmg.meltGUI: no visible global function definition for 'gtable'
pmg.meltGUI: no visible global function definition for 'size<-'
pmg.meltGUI: no visible global function definition for 'gdroplist'
pmg.meltGUI: no visible global function definition for 'gbutton'
pmg.meltGUI: no visible global function definition for 'visible<-'
pmg.meltGUI: no visible global function definition for 'add'
pmg.meltGUI: no visible global function definition for 'gseparator'
pmg.meltGUI: no visible global function definition for 'gexpandgroup'
pmg.meltGUI: no visible global function definition for 'enabled<-'
pmg.meltGUI: no visible global function definition for
  'addhandlerchanged'
pmg.meltGUI : <anonymous>: no visible global function definition for
  'svalue'
pmg.meltGUI : <anonymous>: no visible global function definition for
  'gmessage'
pmg.meltGUI : <anonymous>: no visible global function definition for
  'svalue<-'
pmg.meltGUI : <anonymous>: no visible global function definition for
  'delete'
pmg.meltGUI : <anonymous>: no visible global function definition for
  'gtable'
pmg.meltGUI : <anonymous>: no visible global function definition for
  'head'
pmg.meltGUI : <anonymous>: no visible global function definition for
  'add'
pmg.meltGUI : <anonymous>: no visible global function definition for
  'enabled<-'
pmg.meltGUI : handler: no visible global function definition for
  'svalue'
pmg.meltGUI : handler: no visible global function definition for
  'gmessage'
pmg.meltGUI : handler: no visible global function definition for
  'gconfirm'
pmg.meltGUI : handler: no visible global function definition for
  'enabled<-'
pmg.specifyFileForImport : <anonymous>: no visible global function
  definition for 'ggroup'
pmg.specifyFileForImport : <anonymous>: no visible global function
  definition for 'glayout'
pmg.specifyFileForImport : <anonymous>: no visible global function
  definition for 'gfilebrowse'
pmg.specifyFileForImport : <anonymous>: no visible global function
  definition for 'glabel'
pmg.specifyFileForImport : <anonymous>: no visible global function
  definition for 'font<-'
pmg.specifyFileForImport : <anonymous>: no visible global function
  definition for 'gseparator'
pmg.specifyFileForImport : <anonymous>: no visible global function
  definition for 'gedit'
pmg.specifyFileForImport : <anonymous>: no visible global function
  definition for 'gdroplist'
pmg.specifyFileForImport : <anonymous>: no visible global function
  definition for 'visible<-'
pmg.specifyFileForImport : <anonymous>: no visible global function
  definition for 'svalue'
pmg.specifyFileForImport : <anonymous>: no visible global function
  definition for 'download.file'
pmg.specifyFileForImport : <anonymous>: no visible global function
  definition for 'dispose'
pmg.subset.dialog: no visible global function definition for 'ggroup'
pmg.subset.dialog: no visible global function definition for 'gframe'
pmg.subset.dialog: no visible global function definition for 'glayout'
pmg.subset.dialog: no visible global function definition for 'glabel'
pmg.subset.dialog: no visible global function definition for 'gedit'
pmg.subset.dialog: no visible global function definition for 'gbutton'
pmg.subset.dialog : <anonymous>: no visible global function definition
  for 'editSubsetDialog'
pmg.subset.dialog : <anonymous>: no visible global function definition
  for 'svalue'
pmg.subset.dialog : <anonymous>: no visible global function definition
  for 'editSelectDialog'
pmg.subset.dialog: no visible global function definition for 'gradio'
pmg.subset.dialog : <anonymous>: no visible global function definition
  for 'svalue<-'
pmg.subset.dialog: no visible global function definition for 'add'
pmg.subset.dialog: no visible global function definition for
  'visible<-'
pmg.viewDataSets: no visible global function definition for 'size<-'
pmg.viewDataSets: no visible global function definition for 'ggroup'
pmg.viewDataSets : dataSetHandler: no visible global function
  definition for 'svalue'
pmg.viewDataSets : dataSetHandler: no visible global function
  definition for 'svalue<-'
pmg.viewDataSets: no visible global function definition for 'gtable'
pmg.viewDataSets: no visible global function definition for 'add'
pmg.viewDataSets: no visible global function definition for 'addSpring'
pmg.viewDataSets: no visible global function definition for 'gbutton'
pmg.viewDataSets : <anonymous>: no visible global function definition
  for 'dispose'
pmg.viewDataSets: no visible global function definition for
  'gstatusbar'
pmgIplotInstructions: no visible global function definition for 'gtext'
pmgIplotInstructions: no visible global function definition for 'add'
pmgSummary.default: no visible global function definition for 'svalue'
pmgSummary.default: no visible global function definition for 'ggroup'
pmgSummary.default: no visible global function definition for
  'stockIconFromClass'
pmgSummary.default: no visible global function definition for 'add'
pmgSummary.default: no visible global function definition for 'gimage'
pmgSummary.default: no visible global function definition for 'glayout'
pmgSummary.default: no visible global function definition for 'glabel'
pmgSummary.default: no visible global function definition for
  'svalue<-'
pmgSummary.default: no visible global function definition for 'gdf'
pmgSummary.default: no visible global function definition for
  'capture.output'
pmgSummary.default: no visible global function definition for 'gtext'
pmgSummary.default: no visible global function definition for
  'enabled<-'
pmgSummary.default: no visible global function definition for
  'visible<-'
principle_component: no visible global function definition for 'prcomp'
principle_component: no visible global function definition for
  'dev.new'
principle_component: no visible global function definition for 'biplot'
principle_component: no visible global function definition for 'plot'
principle_component: no visible global function definition for 'bpca'
probabilityCalculator: no visible global function definition for
  'gwindow'
probabilityCalculator : initOptions: no visible global function
  definition for 'svalue'
probabilityCalculator : initOptions: no visible global function
  definition for 'svalue<-'
probabilityCalculator : updatePlot: no visible global function
  definition for 'svalue'
probabilityCalculator : updatePlot: no visible global function
  definition for 'svalue<-'
probabilityCalculator : updatePlot: no visible global function
  definition for 'curve'
probabilityCalculator : updatePlot: no visible binding for global
  variable 'x'
probabilityCalculator : updatePlot: no visible global function
  definition for 'lines'
probabilityCalculator : updatePlot: no visible global function
  definition for 'plot'
probabilityCalculator: no visible global function definition for
  'gdroplist'
probabilityCalculator: no visible global function definition for
  'addhandlerchanged'
probabilityCalculator : <anonymous>: no visible global function
  definition for 'svalue'
probabilityCalculator : <anonymous>: no visible global function
  definition for 'svalue<-'
probabilityCalculator : <anonymous>: no visible global function
  definition for 'enabled<-'
probabilityCalculator: no visible global function definition for
  'gradio'
probabilityCalculator: no visible global function definition for
  'glabel'
probabilityCalculator: no visible global function definition for
  'gedit'
probabilityCalculator: no visible global function definition for
  'ggroup'
probabilityCalculator: no visible global function definition for
  'gframe'
probabilityCalculator: no visible global function definition for
  'glayout'
probabilityCalculator: no visible global function definition for
  'visible<-'
probabilityCalculator: no visible global function definition for 'add'
probabilityCalculator: no visible global function definition for
  'addSpring'
probabilityCalculator: no visible global function definition for
  'gbutton'
probabilityCalculator : <anonymous>: no visible global function
  definition for 'dispose'
probabilityCalculator: no visible global function definition for
  'ggraphics'
qplotGUI : getValueFromString: no visible global function definition
  for 'svalue'
qplotGUI: no visible global function definition for 'gnotebook'
qplotGUI: no visible global function definition for 'ggroup'
qplotGUI: no visible global function definition for 'glayout'
qplotGUI: no visible global function definition for 'gdroplist'
qplotGUI: no visible global function definition for 'gedit'
qplotGUI: no visible global function definition for 'gseparator'
qplotGUI: no visible global function definition for 'gtable'
qplotGUI: no visible global function definition for 'size<-'
qplotGUI: no visible global function definition for 'glabel'
qplotGUI: no visible global function definition for 'gbutton'
qplotGUI : <anonymous>: no visible global function definition for
  'svalue'
qplotGUI: no visible global function definition for 'visible<-'
qplotGUI: no visible global function definition for 'svalue<-'
qplotGUI : updateGeoms: no visible global function definition for
  'svalue'
qplotGUI : updateExtraArgs: no visible global function definition for
  'svalue'
qplotGUI : updateExtraArgs: no visible global function definition for
  'svalue<-'
qplotGUI : updateExtraArgs: no visible global function definition for
  'dispose'
qplotGUI : updateExtraArgs: no visible global function definition for
  'ggroup'
qplotGUI : updateExtraArgs: no visible global function definition for
  'glabel'
qplotGUI : updateExtraArgs: no visible global function definition for
  'gdroplist'
qplotGUI : updateExtraArgs : <anonymous>: no visible global function
  definition for 'formula'
qplotGUI : updateExtraArgs: no visible global function definition for
  'gedit'
qplotGUI : getExtraArgValues: no visible global function definition for
  'svalue'
qplotGUI : updateGraphic: no visible binding for global variable
  'svalue'
qplotGUI : updateGraphic: no visible global function definition for
  'formula'
qplotGUI : updateGraphic.paste: no visible binding for global variable
  'svalue'
qplotGUI : <anonymous>: no visible global function definition for
  'addHandlerChanged'
qplotGUI: no visible global function definition for 'addHandlerClicked'
qplotGUI: no visible global function definition for 'addHandlerChanged'
qplotGUI: no visible global function definition for 'addDropTarget'
quantileWidget: no visible global function definition for 'ggroup'
quantileWidget: no visible global function definition for 'tag<-'
quantileWidget: no visible global function definition for 'gimage'
quantileWidget: no visible global function definition for 'gseparator'
quantileWidget: no visible global function definition for 'glayout'
quantileWidget: no visible global function definition for 'glabel'
quantileWidget: no visible global function definition for 'font<-'
quantileWidget: no visible global function definition for 'gdroplist'
quantileWidget: no visible global function definition for 'add'
quantileWidget: no visible global function definition for 'visible<-'
quantileWidget: no visible global function definition for 'gtext'
quantileWidget: no visible global function definition for
  'addhandlerchanged'
quantileWidget : <anonymous>: no visible global function definition for
  'tag'
quantileWidget : <anonymous>: no visible global function definition for
  'removehandler'
quantileWidget : <anonymous>: no visible global function definition for
  'tag<-'
quantileWidget : <anonymous>: no visible global function definition for
  'svalue'
quantileWidget: no visible global function definition for
  'adddroptarget'
quantileWidget : <anonymous>: no visible global function definition for
  'svalue<-'
quantileWidget : <anonymous>: no visible global function definition for
  'addhandlerchanged'
quantileWidget : update: no visible global function definition for
  'svalue'
quantileWidget : update: no visible global function definition for
  'tag'
quantileWidget : update: no visible global function definition for
  'svalue<-'
quantileWidget : update: no visible global function definition for
  'capture.output'
quantileWidget : update: no visible global function definition for
  'quantile'
quantileWidget : update: no visible global function definition for
  'dispose'
quantileWidget : update: no visible global function definition for
  'add'
repeatTrialsGUI: no visible global function definition for 'gframe'
repeatTrialsGUI: no visible global function definition for 'glayout'
repeatTrialsGUI: no visible global function definition for 'gedit'
repeatTrialsGUI: no visible global function definition for 'gseparator'
repeatTrialsGUI: no visible global function definition for 'gdroplist'
repeatTrialsGUI: no visible global function definition for 'ggroup'
repeatTrialsGUI: no visible global function definition for 'gbutton'
repeatTrialsGUI: no visible global function definition for 'addSpace'
repeatTrialsGUI : <anonymous>: no visible global function definition
  for 'ghelp'
repeatTrialsGUI: no visible global function definition for 'visible<-'
repeatTrialsGUI: no visible global function definition for
  'addHandlerClicked'
repeatTrialsGUI : <anonymous>: no visible global function definition
  for 'svalue'
richness : <anonymous>: no visible global function definition for
  'estimateR'
selectFile: no visible global function definition for 'gfile'
skewness.default: no visible global function definition for 'var'
updateLatticeOptions: no visible global function definition for 'tag'
updateLatticeOptions: no visible global function definition for
  'svalue<-'
updateLatticeOptions: no visible global function definition for 'tag<-'
updatePanel: no visible global function definition for 'tag'
updatedLatticeExplorer: no visible global function definition for 'tag'
updatedLatticeExplorer : <anonymous>: no visible global function
  definition for 'id'
updatedLatticeExplorer : <anonymous>: no visible global function
  definition for 'svalue'
updatedLatticeExplorer: no visible global function definition for
  'svalue'
updatedLatticeExplorer: no visible global function definition for
  'shingle'
updatedLatticeExplorer: no visible global function definition for 'is'
viewDemos.Dialog: no visible global function definition for 'demo'
viewDemos.Dialog: no visible global function definition for 'gtable'
viewDemos.Dialog: no visible global function definition for
  'addhandlerdoubleclick'
viewDemos.Dialog : <anonymous>: no visible global function definition
  for 'svalue'
viewDemos.Dialog: no visible global function definition for 'ggroup'
viewDemos.Dialog: no visible global function definition for 'add'
viewDemos.Dialog: no visible global function definition for 'addSpring'
viewDemos.Dialog: no visible global function definition for 'gbutton'
viewDemos.Dialog : <anonymous>: no visible global function definition
  for 'dispose'
viewDemos.Dialog: no visible global function definition for 'size<-'
viewVignettes.Dialog : defaultHandler: no visible global function
  definition for 'svalue'
viewVignettes.Dialog: no visible global function definition for
  'gtable'
viewVignettes.Dialog: no visible global function definition for
  'ggroup'
viewVignettes.Dialog: no visible global function definition for 'add'
viewVignettes.Dialog: no visible global function definition for
  'addSpring'
viewVignettes.Dialog: no visible global function definition for
  'gbutton'
viewVignettes.Dialog : <anonymous>: no visible global function
  definition for 'dispose'
viewVignettes.Dialog: no visible global function definition for
  'size<-'
Undefined global functions or variables:
  .GlobalEnv .jstrVal RSiteSearch Sample_Data aData add addDropTarget
  addHandlerChanged addHandlerClicked addSpace addSpring adddropsource
  adddroptarget addhandlerchanged addhandlerclicked
  addhandlerdoubleclick addhandlerunrealize as.formula
  assignInNamespace available.packages biplot bpca capture.output
  collab2 curve data delete demo density dev.new dev.off dispose
  diversity dnorm download.file ecdf editSelectDialog editSubsetDialog
  enabled<- estimateR focus<- font<- formula gbasicdialog gbutton
  gcheckbox gcheckboxgroup gcommandline gconfirm gdf gdroplist gedit
  getFromNamespace getType gexpandgroup gfile gfilebrowse gframe
  ggenericwidget ggraphics ggraphicsnotebook ggroup ghelp ghelpbrowser
  gimage glabel glayout gmenu gmessage gnotebook gpanedgroup gradio
  gray gseparator gspinbutton gstatusbar gtable gtext gtoolbar
  guiToolkit gvarbrowser gwindow hclust head hist iabline ibox id
  ilines imosaic install.packages installed.packages iobj.cur iobj.rm
  ipcp iplot.cur iplot.list iplot.set is iset.df iset.list iset.new
  iset.select iset.selected iset.set lines lm lowess median
  old.packages panel.abline par plot plot.new plot.window pmg.menubar
  pmg.user.menu png pnorm polygon prcomp qnorm quantile read.csv
  read.table readOTUset removehandler rug sData sd shingle size<-
  stockIconFromClass svalue svalue<- tag tag<- text var vegdist
  vignette visible<- x
Consider adding
  importFrom("base", ".GlobalEnv")
  importFrom("grDevices", "dev.new", "dev.off", "gray", "png")
  importFrom("graphics", "curve", "hist", "lines", "par", "plot",
             "plot.new", "plot.window", "polygon", "rug", "text")
  importFrom("methods", "is")
  importFrom("stats", "as.formula", "biplot", "density", "dnorm", "ecdf",
             "formula", "hclust", "lm", "lowess", "median", "pnorm",
             "prcomp", "qnorm", "quantile", "sd", "var")
  importFrom("utils", "RSiteSearch", "assignInNamespace",
             "available.packages", "capture.output", "data", "demo",
             "download.file", "getFromNamespace", "head",
             "install.packages", "installed.packages", "old.packages",
             "read.csv", "read.table", "vignette")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* 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 files in 'vignettes' ... WARNING
Files in the 'vignettes' directory but no files in 'inst/doc':
  'An_Introduction_and_User_Guide_for_mcaGUI.pdf'
Package has no Sweave vignette sources and no VignetteBuilder field.
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 4 NOTEs
See
  'C:/Users/biocbuild/bbs-3.7-bioc/meat/mcaGUI.Rcheck/00check.log'
for details.

Installation output

mcaGUI.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/mcaGUI_1.28.1.tar.gz && rm -rf mcaGUI.buildbin-libdir && mkdir mcaGUI.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=mcaGUI.buildbin-libdir mcaGUI_1.28.1.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL mcaGUI_1.28.1.zip && rm mcaGUI_1.28.1.tar.gz mcaGUI_1.28.1.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 2215k  100 2215k    0     0  27.7M      0 --:--:-- --:--:-- --:--:-- 30.4M

install for i386

* installing *source* package 'mcaGUI' ...
** R
** inst
** byte-compile and prepare package for lazy loading
Note: ... may be used in an incorrect context 
** help
*** installing help indices
  converting help for package 'mcaGUI'
    finding HTML links ... done
    mcaGUI                                  html  
    mcaGUIpackage                           html  
    mcaGUIundocumented                      html  
    pmgDynamic                              html  
    pmgRepeatTrials                         html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
Loading mcaGUI()
[1] "You can access the mcaGUI vignette by browsing to:  "
[1] ""
GUI requires an interactive environment
In R CMD INSTALL

install for x64

* installing *source* package 'mcaGUI' ...
** testing if installed package can be loaded
Loading mcaGUI()
[1] "You can access the mcaGUI vignette by browsing to:  "
[1] ""
GUI requires an interactive environment
* MD5 sums
packaged installation of 'mcaGUI' as mcaGUI_1.28.1.zip
* DONE (mcaGUI)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'mcaGUI' successfully unpacked and MD5 sums checked
In R CMD INSTALL

Tests output

Example timings

mcaGUI.Rcheck/examples_i386/mcaGUI-Ex.timings

nameusersystemelapsed
mcaGUI000
pmgDynamic000
pmgRepeatTrials0.140.000.14

mcaGUI.Rcheck/examples_x64/mcaGUI-Ex.timings

nameusersystemelapsed
mcaGUI000
pmgDynamic000
pmgRepeatTrials0.170.000.17