Package: mcaGUI

Version: 1.0.0

Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings mcaGUI_1.0.0.tar.gz

StartedAt: 2011-10-20 13:28:05 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 13:32:06 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 241.3 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: mcaGUI.Rcheck

Warnings: 1

* using log directory ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/mcaGUI.Rcheck’
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘mcaGUI/DESCRIPTION’ ... OK
* this is package ‘mcaGUI’ version ‘1.0.0’
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package which this enhances but not available for checking: iplots
* checking if this is a source package ... OK
* checking whether package ‘mcaGUI’ can be installed ... WARNING
Found the following significant warnings:
  Warning: LazyLoad = FALSE is deprecated
See ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/mcaGUI.Rcheck/00install.out’ for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.editDFProperties : <anonymous>: no visible binding for global variable
  ‘getType’
.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 : <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
  ‘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> : addTrendLine: no visible global function
  definition for ‘iset.selected’
.newSet : <anonymous> : addTrendLine: no visible global function
  definition for ‘iabline’
.newSet : <anonymous> : addTrendLine: no visible global function
  definition for ‘ilines’
.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’
OTUbasereader : OTUbase: no visible binding for '<<-' assignment to
  ‘OTUset’
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 : new.window : createAssignmentData: no
  visible binding for '<<-' assignment to ‘collab2’
constructionOfNormal : updatePlot: no visible binding for global
  variable ‘x’
histogramAndDensity : addDensity: no visible binding for global
  variable ‘x’
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’
mcaGUI: no visible binding for global variable ‘pmg.user.menu’
mcaGUI: no visible binding for global variable ‘pmg.menubar’
mcaGUI: no visible binding for '<<-' assignment to ‘send’
probabilityCalculator : updatePlot: no visible binding for global
  variable ‘x’
* 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 examples ... OK
* checking PDF version of manual ... OK

WARNING: There was 1 warning, see
  ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/mcaGUI.Rcheck/00check.log’
for details

* installing *source* package ‘mcaGUI’ ...
** R
** inst
Warning: LazyLoad = FALSE is deprecated
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
Xlib:  extension "RANDR" missing on display ":745.0".
================================================================================
Welcome to OTUbase version 1.2.0
Loading mcaGUI()
[1] "You can access the mcaGUI vignette by browsing to:  "
[1] "/loc/home/biocbuild/bbs-2.8-bioc/meat/mcaGUI.Rcheck/mcaGUI/doc/An_Introduction_and_User_Guide_for_mcaGUI.pdf"
GUI requires an interactive environment

* DONE (mcaGUI)

name	user	system	elapsed
mcaGUI	0	0	0
pmgDynamic	0	0	0
pmgRepeatTrials	0.82	0.02	0.84