oneChannelGUI 1.18.7
Raffaele A Calogero
| Snapshot Date: 2011-10-20 07:20:33 -0700 (Thu, 20 Oct 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_8/madman/Rpacks/oneChannelGUI | | Last Changed Rev: 56797 / Revision: 59457 | | Last Changed Date: 2011-07-18 08:59:07 -0700 (Mon, 18 Jul 2011) |
| lamb1 | Linux (openSUSE 11.3) / x86_64 | OK | WARNINGS | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | WARNINGS | OK |
| gewurz | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | [ WARNINGS ] | OK |
| pelham | Mac OS X Leopard (10.5.8) / i386 | OK | WARNINGS | OK |
* using log directory 'D:/biocbld/bbs-2.8-bioc/meat/oneChannelGUI.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'oneChannelGUI/DESCRIPTION' ... OK
* this is package 'oneChannelGUI' version '1.18.7'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'oneChannelGUI' can be installed ... OK
* checking installed package size ... NOTE
installed size is 5.8Mb
sub-directories of 1Mb or more:
doc 4.5Mb
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
File type 'perl' not found or no open command associated with it.
File type 'perl' not found or no open command associated with it.
.GetContrasts: no visible binding for global variable
'affylmGUIenvironment'
.GetContrasts: no visible global function definition for 'limmaExon'
.aptDir: no visible binding for global variable '.affylmGUIglobals'
.consistentFilter: no visible binding for global variable
'.affylmGUIglobals'
.consistentFilter: no visible binding for global variable
'affylmGUIenvironment'
.consistentFilter : onOK: no visible binding for global variable
'affylmGUIenvironment'
.consistentFilter : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
.downloadLibs: no visible binding for global variable
'.affylmGUIglobals'
.downloadLibs: no visible binding for global variable
'affylmGUIenvironment'
.exonTopTable: no visible binding for global variable
'affylmGUIenvironment'
.fromNGStoDf: no visible binding for global variable 'tmpIR'
.gettingEG: no visible binding for global variable
'affylmGUIenvironment'
.gettingEG: no visible binding for global variable 'huex.annotation'
.gettingEG: no visible binding for global variable 'moex.annotation'
.gettingEG: no visible binding for global variable 'raex.annotation'
.gettingOneEG: no visible binding for global variable
'.affylmGUIglobals'
.gettingOneEG: no visible binding for global variable
'affylmGUIenvironment'
.mappingWgenominator: no visible binding for global variable
'affylmGUIenvironment'
.pamr.confusion.mod: no visible binding for global variable
'which.is.max'
.rawpCheckExons: no visible binding for global variable
'affylmGUIenvironment'
.rawpCheckExons: no visible binding for global variable
'.affylmGUIglobals'
.resize: no visible binding for global variable '.affylmGUIglobals'
.resize: no visible binding for global variable 'affylmGUIenvironment'
.resize : onOK: no visible binding for global variable
'affylmGUIenvironment'
.resize : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
AptMidas: no visible binding for global variable 'affylmGUIenvironment'
AptMidas: no visible binding for global variable '.affylmGUIglobals'
AptMidas: no visible binding for global variable 'tmp'
ComputeContrasts: no visible binding for global variable
'affylmGUIenvironment'
ComputeLinearModelFit: no visible binding for global variable
'affylmGUIenvironment'
ComputeLinearModelFit: no visible binding for global variable
'.affylmGUIglobals'
EG2probeset: no visible binding for global variable '.affylmGUIglobals'
EG2probeset: no visible binding for global variable
'affylmGUIenvironment'
EG2probeset : OpenAFile: no visible binding for global variable
'.affylmGUIglobals'
ExportNormalizedExpressionValues: no visible binding for global
variable 'affylmGUIenvironment'
ExportNormalizedExpressionValues1: no visible binding for global
variable 'affylmGUIenvironment'
ExportfeatureNames: no visible binding for global variable
'affylmGUIenvironment'
GOenrichment: no visible binding for global variable
'.affylmGUIglobals'
GOenrichment: no visible binding for global variable
'affylmGUIenvironment'
GOenrichment : onOK: no visible binding for '<<-' assignment to
'ReturnVal'
GOenrichment : onOK: no visible binding for global variable
'.affylmGUIglobals'
GOenrichment : onCancel: no visible binding for global variable
'.affylmGUIglobals'
GOenrichment : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
GOenrichment: no visible binding for global variable 'ReturnVal'
GOenrichment : OpenAFile: no visible binding for global variable
'.affylmGUIglobals'
GOenrichment: no visible binding for global variable 'huex.annotation'
GOenrichment: no visible binding for global variable 'moex.annotation'
GOenrichment: no visible binding for global variable 'raex.annotation'
GetNormalizationMethod: no visible binding for global variable
'.affylmGUIglobals'
GetNormalizationMethod : onCancel: no visible binding for global
variable '.affylmGUIglobals'
GetNormalizationMethod : onOK: no visible binding for global variable
'.affylmGUIglobals'
GetNormalizationMethod : <anonymous>: no visible binding for global
variable '.affylmGUIglobals'
IPAlistFilter: no visible binding for global variable
'affylmGUIenvironment'
IPAlistFilter: no visible binding for global variable
'.affylmGUIglobals'
IPAlistFilter: no visible binding for global variable 'huex.annotation'
IPAlistFilter: no visible binding for global variable 'moex.annotation'
IPAlistFilter: no visible binding for global variable 'raex.annotation'
ML.edesign: no visible binding for global variable
'affylmGUIenvironment'
ML.edesign: no visible binding for global variable '.affylmGUIglobals'
ML.edesign : onClose: no visible binding for global variable
'.affylmGUIglobals'
ML.edesign : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
NGSreformat: no visible binding for global variable
'affylmGUIenvironment'
NGSreformat : onOK: no visible binding for global variable
'affylmGUIenvironment'
NewLimmaFile: no visible binding for global variable
'affylmGUIenvironment'
NormalizeNow: no visible binding for global variable
'affylmGUIenvironment'
NormalizeNow: no visible binding for global variable
'.affylmGUIglobals'
OpenAFile: no visible binding for global variable '.affylmGUIglobals'
OpenAGeoFile: no visible binding for global variable
'.affylmGUIglobals'
OpenAGeoFile: no visible binding for global variable
'affylmGUIenvironment'
OpenALimmaFile: no visible binding for global variable
'affylmGUIenvironment'
OpenBeadStudioFiles : onOK: no visible binding for global variable
'affylmGUIenvironment'
OpenBeadStudioFiles: no visible binding for global variable
'affylmGUIenvironment'
OpenCDFandTargetsfiles : onOK: no visible binding for global variable
'affylmGUIenvironment'
OpenCDFandTargetsfiles: no visible binding for global variable
'affylmGUIenvironment'
OpenExonandTargetsfiles : onOK: no visible binding for global variable
'affylmGUIenvironment'
OpenExonandTargetsfiles: no visible binding for global variable
'affylmGUIenvironment'
OpenExonandTargetsfiles: no visible binding for '<<-' assignment to
'ReturnValX'
OpenExonandTargetsfiles : onOK: no visible binding for '<<-' assignment
to 'ReturnValX'
OpenExonandTargetsfiles: no visible binding for global variable
'ReturnValX'
OpenGeoFiles : onOK: no visible binding for global variable
'affylmGUIenvironment'
OpenGeoFiles: no visible binding for global variable
'affylmGUIenvironment'
OpenGeoFiles: no visible binding for global variable 'geoVSbioc'
OpenLargefiles : onOK: no visible binding for global variable
'affylmGUIenvironment'
OpenLargefiles: no visible binding for global variable
'affylmGUIenvironment'
OpenNgsfiles : onOK: no visible binding for global variable
'affylmGUIenvironment'
OpenNgsfiles: no visible binding for global variable
'affylmGUIenvironment'
OpenmiRExpress : onOK: no visible binding for global variable
'affylmGUIenvironment'
OpenmiRExpress: no visible binding for global variable
'affylmGUIenvironment'
OpenmiRProfiles : onOK: no visible binding for global variable
'affylmGUIenvironment'
OpenmiRProfiles: no visible binding for global variable
'affylmGUIenvironment'
OpenmiRShrimp : onOK: no visible binding for global variable
'affylmGUIenvironment'
OpenmiRShrimp: no visible binding for global variable
'affylmGUIenvironment'
OpenmiRanalyserfiles : onOK: no visible binding for global variable
'affylmGUIenvironment'
OpenmiRanalyserfiles: no visible binding for global variable
'affylmGUIenvironment'
PlotOptionsv1: no visible binding for global variable
'.affylmGUIglobals'
PlotOptionsv1 : onOK: no visible binding for global variable
'.affylmGUIglobals'
PlotOptionsv1 : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
Reads2logos: no visible binding for global variable '.affylmGUIglobals'
Reads2logos: no visible binding for global variable
'affylmGUIenvironment'
Reads2logos : onOK: no visible binding for global variable
'affylmGUIenvironment'
Reads2logos : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
Reads2logos : onCancel: no visible binding for global variable
'.affylmGUIglobals'
Reads2logos : onOK: no visible binding for global variable
'.affylmGUIglobals'
RmiRInterface: no visible binding for global variable
'.affylmGUIglobals'
RmiRInterface : onOK: no visible binding for global variable
'.affylmGUIglobals'
RmiRInterface : onCancel: no visible binding for global variable
'.affylmGUIglobals'
RmiRInterface : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
SaveAsLimmaFile: no visible binding for global variable
'.affylmGUIglobals'
SaveAsLimmaFile: no visible binding for global variable
'affylmGUIenvironment'
SetED: no visible binding for global variable '.affylmGUIglobals'
VennDiagram: no visible binding for global variable '.affylmGUIglobals'
VennDiagram : onCancel: no visible binding for global variable
'.affylmGUIglobals'
VennDiagram : onOK: no visible binding for global variable
'.affylmGUIglobals'
VennDiagram : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
VennDiagram: no visible binding for global variable
'affylmGUIenvironment'
VennDiagram : plotFunction: no visible binding for global variable
'include'
VennDiagram: no visible global function definition for 'tkrplot'
addAnnLib: no visible binding for global variable
'affylmGUIenvironment'
addAnnLib: no visible binding for global variable '.affylmGUIglobals'
addAnnLib : onOK: no visible binding for global variable
'affylmGUIenvironment'
addAnnLib : onOK: no visible binding for global variable
'.affylmGUIglobals'
addAnnLib : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
affyPlotMA: no visible binding for global variable
'affylmGUIenvironment'
affyPlotMA: no visible binding for global variable '.affylmGUIglobals'
affyPlotMA : plotFunction: no visible binding for global variable
'.affylmGUIglobals'
affyPlotMA : CopyToClip: no visible global function definition for
'tkrreplot'
affyPlotMA: no visible global function definition for 'tkrplot'
annotateNGSeset: no visible binding for global variable
'.affylmGUIglobals'
annotateNGSeset: no visible binding for global variable
'affylmGUIenvironment'
aptFolder: no visible binding for global variable '.affylmGUIglobals'
aptFolder: no visible binding for global variable
'affylmGUIenvironment'
bayseqInterface: no visible binding for global variable
'.affylmGUIglobals'
bayseqInterface : onOK: no visible binding for global variable
'affylmGUIenvironment'
bayseqInterface : onOK: no visible binding for global variable
'.affylmGUIglobals'
bayseqInterface : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
bayseqInterface: no visible binding for global variable
'affylmGUIenvironment'
bayseqInterface : onOK: no visible binding for '<<-' assignment to
'ReturnVal'
bayseqInterface : onCancel: no visible binding for '<<-' assignment to
'ReturnVal'
bayseqInterface : onCancel: no visible binding for global variable
'.affylmGUIglobals'
bayseqInterface: no visible binding for global variable 'ReturnVal'
biomartFilter: no visible binding for global variable
'.affylmGUIglobals'
buildingLocalAnnotation: no visible binding for global variable
'.affylmGUIglobals'
buildingLocalAnnotation : onOK: no visible binding for global variable
'affylmGUIenvironment'
buildingLocalAnnotation : <anonymous>: no visible binding for global
variable '.affylmGUIglobals'
buildingLocalAnnotation: no visible binding for global variable
'affylmGUIenvironment'
buildingLocalAnnotation : onOK: no visible binding for '<<-' assignment
to 'ReturnNetaffx'
buildingLocalAnnotation : onOK: no visible binding for global variable
'.affylmGUIglobals'
buildingLocalAnnotation : onCancel: no visible binding for global
variable '.affylmGUIglobals'
buildingLocalAnnotation: no visible binding for global variable
'ReturnNetaffx'
changeMenu: no visible binding for global variable
'affylmGUIenvironment'
changeMenu: no visible binding for global variable '.affylmGUIglobals'
chooseEDir: no visible binding for global variable '.affylmGUIglobals'
colExtract: no visible binding for global variable '.affylmGUIglobals'
colExtract : onOK: no visible binding for global variable
'affylmGUIenvironment'
colExtract : onOK: no visible binding for global variable
'.affylmGUIglobals'
colExtract : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
colExtract: no visible binding for global variable
'affylmGUIenvironment'
combineGeoMSF: no visible binding for global variable
'.affylmGUIglobals'
combineGeoMSF : onOK: no visible binding for global variable
'.affylmGUIglobals'
combineGeoMSF : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
combineGeoMSF: no visible binding for global variable
'affylmGUIenvironment'
combining2eSet: no visible binding for global variable
'.affylmGUIglobals'
consistentFilters: no visible binding for global variable
'.affylmGUIglobals'
consistentFilters: no visible binding for global variable
'affylmGUIenvironment'
consistentFilters : onOK: no visible binding for '<<-' assignment to
'ReturnFilter'
consistentFilters : onOK: no visible binding for global variable
'.affylmGUIglobals'
consistentFilters : onCancel: no visible binding for global variable
'.affylmGUIglobals'
consistentFilters : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
consistentFilters: no visible binding for global variable
'ReturnFilter'
consistentFilters : onOK: no visible binding for global variable
'affylmGUIenvironment'
cosieWrapper: no visible binding for global variable
'affylmGUIenvironment'
cosieWrapper: no visible binding for global variable
'.affylmGUIglobals'
createGeoTarget: no visible binding for global variable
'.affylmGUIglobals'
crosshybFilter: no visible binding for global variable
'affylmGUIenvironment'
crosshybFilter: no visible binding for global variable
'.affylmGUIglobals'
crosshybFilter : onCancel: no visible binding for global variable
'.affylmGUIglobals'
crosshybFilter : onOK: no visible binding for global variable
'.affylmGUIglobals'
crosshybFilter : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
ctrtrtHeatmap: no visible binding for global variable
'affylmGUIenvironment'
ctrtrtHeatmap: no visible binding for global variable
'.affylmGUIglobals'
dabgFilter: no visible binding for global variable
'affylmGUIenvironment'
dabgFilter: no visible binding for global variable '.affylmGUIglobals'
dabgFilter : onOK: no visible binding for '<<-' assignment to
'ReturnVal'
dabgFilter : onOK: no visible binding for global variable
'.affylmGUIglobals'
dabgFilter : onCancel: no visible binding for '<<-' assignment to
'ReturnVal'
dabgFilter : onCancel: no visible binding for global variable
'.affylmGUIglobals'
dabgFilter : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
dabgFilter: no visible binding for global variable 'ReturnVal'
delete.ML: no visible binding for global variable
'affylmGUIenvironment'
delete.ML: no visible binding for global variable '.affylmGUIglobals'
deleteLocalData: no visible binding for global variable
'.affylmGUIglobals'
dfMAplot: no visible binding for global variable '.affylmGUIglobals'
dfMAplot : onOK: no visible binding for '<<-' assignment to 'ReturnVal'
dfMAplot : onOK: no visible binding for global variable
'.affylmGUIglobals'
dfMAplot : onCancel: no visible binding for global variable
'.affylmGUIglobals'
dfMAplot : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
dfMAplot: no visible binding for global variable 'ReturnVal'
eSet4meV: no visible binding for global variable 'affylmGUIenvironment'
edgeRNorm: no visible binding for global variable '.affylmGUIglobals'
edgeRNorm: no visible binding for global variable
'affylmGUIenvironment'
edgerInterface: no visible binding for global variable
'affylmGUIenvironment'
edgerInterface: no visible binding for global variable
'.affylmGUIglobals'
edgerInterface : onOK: no visible binding for global variable
'affylmGUIenvironment'
edgerInterface : onOK: no visible binding for global variable
'.affylmGUIglobals'
edgerInterface : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
edgerInterface : onOK: no visible binding for '<<-' assignment to
'ReturnVal'
edgerInterface : onCancel: no visible binding for '<<-' assignment to
'ReturnVal'
edgerInterface : onCancel: no visible binding for global variable
'.affylmGUIglobals'
edgerInterface: no visible binding for global variable 'ReturnVal'
erankProdAltSpl: no visible binding for global variable
'affylmGUIenvironment'
erankProdAltSpl: no visible binding for global variable
'.affylmGUIglobals'
erankProdAltSpl : onCancel: no visible binding for global variable
'.affylmGUIglobals'
erankProdAltSpl : onOK: no visible binding for global variable
'.affylmGUIglobals'
erankProdAltSpl : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
erankProdAltSpl: no visible binding for '<<-' assignment to 'ReturnVal'
erankProdAltSpl : onOK: no visible binding for '<<-' assignment to
'ReturnVal'
erankProdAltSpl: no visible binding for global variable 'ReturnVal'
erankProdAltSplFilter: no visible binding for global variable
'affylmGUIenvironment'
erankProdAltSplFilter: no visible binding for global variable
'.affylmGUIglobals'
erankProdAltSplFilter : onOK: no visible binding for global variable
'affylmGUIenvironment'
erankProdAltSplFilter : <anonymous>: no visible binding for global
variable '.affylmGUIglobals'
exonContrasts: no visible binding for global variable
'affylmGUIenvironment'
exonTopTableExtract: no visible binding for global variable
'affylmGUIenvironment'
exonTopTableExtract: no visible binding for global variable
'.affylmGUIglobals'
exonTopTableExtract : onOK: no visible binding for global variable
'affylmGUIenvironment'
exonTopTableExtract : <anonymous>: no visible binding for global
variable '.affylmGUIglobals'
exonsSpecific2as: no visible binding for global variable
'.affylmGUIglobals'
exonsSpecific2as: no visible binding for global variable
'affylmGUIenvironment'
exportFASTA: no visible binding for global variable '.affylmGUIglobals'
exportFASTA : onCancel: no visible binding for global variable
'.affylmGUIglobals'
exportFASTA : onOK: no visible binding for global variable
'.affylmGUIglobals'
exportFASTA : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
extractAffyids: no visible binding for global variable
'.affylmGUIglobals'
extractAffyids: no visible binding for global variable
'affylmGUIenvironment'
extractAffyids : onOK: no visible binding for global variable
'affylmGUIenvironment'
extractAffyids : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
extractAffyids : OpenAFile: no visible binding for global variable
'.affylmGUIglobals'
extractAffyids: no visible binding for global variable
'huex.annotation'
extractAffyids: no visible binding for global variable
'moex.annotation'
extractAffyids: no visible binding for global variable
'raex.annotation'
extractmirTargets: no visible binding for global variable
'.affylmGUIglobals'
extractmirTargets : onOK: no visible binding for global variable
'affylmGUIenvironment'
extractmirTargets : onOK: no visible binding for global variable
'.affylmGUIglobals'
extractmirTargets : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
extractmirTargets: no visible binding for global variable
'affylmGUIenvironment'
filteringTable: no visible binding for global variable
'.affylmGUIglobals'
filteringmiRtargets: no visible binding for global variable
'.affylmGUIglobals'
filteringmiRtargets : onCancel: no visible binding for global variable
'.affylmGUIglobals'
filteringmiRtargets : onOK: no visible binding for global variable
'.affylmGUIglobals'
filteringmiRtargets : <anonymous>: no visible binding for global
variable '.affylmGUIglobals'
geneExonLibs: no visible binding for global variable
'affylmGUIenvironment'
geneExonLibs: no visible binding for global variable
'.affylmGUIglobals'
genomePlot: no visible binding for global variable '.affylmGUIglobals'
genomePlot: no visible binding for global variable
'affylmGUIenvironment'
genomePlot : onOK: no visible binding for global variable
'affylmGUIenvironment'
genomePlot : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
genomePlot: no visible binding for global variable
'crosshybraex.annotation'
getNGSannotation: no visible binding for '<<-' assignment to
'ReturnAnn'
getNGSannotation: no visible binding for global variable
'.affylmGUIglobals'
getNGSannotation : onOK: no visible binding for '<<-' assignment to
'ReturnAnn'
getNGSannotation : onOK: no visible binding for global variable
'.affylmGUIglobals'
getNGSannotation : onCancel: no visible binding for global variable
'.affylmGUIglobals'
getNGSannotation : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
getNGSannotation: no visible binding for global variable 'ReturnAnn'
getNGSannotation: no visible binding for global variable
'affylmGUIenvironment'
initialize.extAffylmGUI: no visible binding for global variable
'affylmGUIenvironment'
initialize.extAffylmGUI: no visible binding for global variable
'.affylmGUIglobals'
inspecting.one.splice.index: no visible binding for global variable
'.affylmGUIglobals'
inspecting.one.splice.index: no visible binding for global variable
'affylmGUIenvironment'
inspecting.one.splice.index : onOK: no visible binding for global
variable 'affylmGUIenvironment'
inspecting.one.splice.index : <anonymous>: no visible binding for
global variable '.affylmGUIglobals'
inspecting.splice.index: no visible binding for global variable
'.affylmGUIglobals'
inspecting.splice.index: no visible binding for global variable
'affylmGUIenvironment'
intensityFilter: no visible binding for global variable
'.affylmGUIglobals'
intensityFilter : onOK: no visible binding for '<<-' assignment to
'ReturnVal'
intensityFilter : onOK: no visible binding for global variable
'.affylmGUIglobals'
intensityFilter : onCancel: no visible binding for '<<-' assignment to
'ReturnVal'
intensityFilter : onCancel: no visible binding for global variable
'.affylmGUIglobals'
intensityFilter : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
intensityFilter: no visible binding for global variable 'ReturnVal'
intronicBg: no visible binding for global variable
'affylmGUIenvironment'
intronicBg: no visible binding for global variable '.affylmGUIglobals'
intronicBg : onOK: no visible binding for global variable
'affylmGUIenvironment'
intronicBg : onOK: no visible binding for global variable
'.affylmGUIglobals'
intronicBg : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
iqrFilter: no visible binding for global variable '.affylmGUIglobals'
iqrFilter : onCancel: no visible binding for global variable
'.affylmGUIglobals'
iqrFilter : onOK: no visible binding for global variable
'.affylmGUIglobals'
iqrFilter : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
largedatasetNorm: no visible binding for global variable
'affylmGUIenvironment'
largedatasetNorm: no visible binding for global variable
'.affylmGUIglobals'
largedatasetNorm : onCancel: no visible binding for global variable
'.affylmGUIglobals'
largedatasetNorm : onOK: no visible binding for global variable
'.affylmGUIglobals'
largedatasetNorm : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
libraryFilesDir: no visible binding for global variable
'.affylmGUIglobals'
limma2paired: no visible binding for global variable
'affylmGUIenvironment'
limma2paired: no visible binding for global variable
'.affylmGUIglobals'
limma2paired : onOK: no visible binding for global variable
'.affylmGUIglobals'
limma2paired : onHelp: possible error in help("topTable", htmlhelp =
TRUE): unused argument(s) (htmlhelp = TRUE)
limma2paired : onCancel: no visible binding for global variable
'.affylmGUIglobals'
limma2paired : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
limma2paired: no visible binding for global variable 'huex.annotation'
limma2paired: no visible binding for global variable 'moex.annotation'
limma2paired: no visible binding for global variable 'raex.annotation'
limma2paired: no visible binding for global variable 'annlib'
limmaExons: no visible binding for global variable
'affylmGUIenvironment'
limmaExons: no visible binding for global variable '.affylmGUIglobals'
listFilter: no visible binding for global variable
'affylmGUIenvironment'
listFilter: no visible binding for global variable '.affylmGUIglobals'
listFilter : OpenAFile: no visible binding for global variable
'.affylmGUIglobals'
log2Conversion: no visible binding for global variable
'affylmGUIenvironment'
log2Conversion: no visible binding for global variable
'.affylmGUIglobals'
mRNAmiRCor: no visible binding for global variable '.affylmGUIglobals'
mRNAmiRCor: no visible binding for global variable
'affylmGUIenvironment'
mRNAmiRCor : onOK: no visible binding for '<<-' assignment to
'ReturnVal'
mRNAmiRCor : onOK: no visible binding for global variable
'.affylmGUIglobals'
mRNAmiRCor : onCancel: no visible binding for '<<-' assignment to
'ReturnVal'
mRNAmiRCor : onCancel: no visible binding for global variable
'.affylmGUIglobals'
mRNAmiRCor : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
mRNAmiRCor: no visible binding for global variable 'ReturnVal'
mRNAmiRCor : .OpenAmiRFile: no visible binding for global variable
'.affylmGUIglobals'
mRNAmiRCor: possible error in Try(tkmessageBox(title = "Filtering by
correlation", message = "The data set in oneChannelGUI and the miR
data have the samples organized in different way!\nPlease modify the
miRdata file to have the same samples organization as in the Target
name of the dataset load in oneChannelGUI."), type = "error"): unused
argument(s) (type = "error")
mRNAmiRCor: possible error in Try(tkmessageBox(title = "Filtering by
correlation", message = "The data set in oneChannelGUI and the miR
data do not contain the same number of samples!"), type = "error"):
unused argument(s) (type = "error")
makeBED15: no visible binding for global variable '.affylmGUIglobals'
mapping2RefSeq: no visible binding for global variable
'.affylmGUIglobals'
mapping2RefSeq: no visible binding for global variable
'affylmGUIenvironment'
mapping2ensembl: no visible binding for global variable
'.affylmGUIglobals'
mapping2ensembl: no visible binding for global variable
'affylmGUIenvironment'
mapping2exon: no visible binding for global variable
'.affylmGUIglobals'
mapping2exon: no visible binding for global variable
'affylmGUIenvironment'
masigpro: no visible binding for global variable 'affylmGUIenvironment'
masigpro: no visible binding for global variable '.affylmGUIglobals'
masigpro : onOK: no visible binding for global variable
'.affylmGUIglobals'
masigpro : onCancel: no visible binding for global variable
'.affylmGUIglobals'
masigpro : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
masigpro.edesign: no visible binding for global variable
'affylmGUIenvironment'
masigpro.edesign: no visible binding for global variable
'.affylmGUIglobals'
masigpro.edesign : onClose: no visible binding for global variable
'.affylmGUIglobals'
masigpro.edesign : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
masigpro.view: no visible binding for global variable
'affylmGUIenvironment'
masigpro.view: no visible binding for global variable
'.affylmGUIglobals'
masigpro.view : onCancel: no visible binding for global variable
'.affylmGUIglobals'
masigpro.view : onOK: no visible binding for global variable
'.affylmGUIglobals'
masigpro.view : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
masigpro.view : plotFunction: no visible binding for global variable
'include'
masigpro.view: no visible global function definition for 'tkrplot'
masigpro.view : onOK: no visible binding for global variable
'affylmGUIenvironment'
meVDownload: no visible binding for global variable '.affylmGUIglobals'
meVDownload: no visible binding for global variable
'affylmGUIenvironment'
metaArrayIC: no visible binding for global variable
'affylmGUIenvironment'
metaArrayIC: no visible binding for global variable '.affylmGUIglobals'
metaArrayMerge : OpenAFile: no visible binding for global variable
'.affylmGUIglobals'
metaArrayMerge: no visible binding for global variable
'affylmGUIenvironment'
metaArrayMerge: no visible binding for global variable
'.affylmGUIglobals'
metaArrayMerge : onCancel: no visible binding for global variable
'.affylmGUIglobals'
metaArrayMerge : onOK: no visible binding for global variable
'.affylmGUIglobals'
metaArrayMerge : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
midasFilter: no visible binding for global variable
'affylmGUIenvironment'
midasFilter: no visible binding for global variable '.affylmGUIglobals'
midasFilter : onOK: no visible binding for global variable
'affylmGUIenvironment'
midasFilter : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
myExpresso: no visible binding for global variable
'affylmGUIenvironment'
myExpresso: no visible binding for global variable '.affylmGUIglobals'
ngsperlDownload: no visible binding for global variable
'affylmGUIenvironment'
ngsperlDownload: no visible binding for global variable
'.affylmGUIglobals'
normBoxplot: no visible binding for global variable
'affylmGUIenvironment'
normBoxplot: no visible binding for global variable '.affylmGUIglobals'
ocPlotHist: no visible binding for global variable
'affylmGUIenvironment'
ocPlotHist: no visible binding for global variable '.affylmGUIglobals'
ocPlotHist : onCancel: no visible binding for global variable
'.affylmGUIglobals'
ocPlotHist : onOK: no visible binding for global variable
'.affylmGUIglobals'
ocPlotHist : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
ocPlotPCA: no visible binding for global variable
'affylmGUIenvironment'
ocPlotPCA: no visible binding for global variable '.affylmGUIglobals'
ocPlotPCA : onCancel: no visible binding for global variable
'.affylmGUIglobals'
ocPlotPCA : onOK: no visible binding for global variable
'.affylmGUIglobals'
ocPlotPCA : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
oneChannelGUI: no visible binding for global variable
'affylmGUIenvironment'
oneChannelGUI: no visible binding for global variable
'.affylmGUIglobals'
plierToZero: no visible binding for global variable
'affylmGUIenvironment'
plierToZero: no visible binding for global variable '.affylmGUIglobals'
plotGO: no visible binding for global variable 'affylmGUIenvironment'
plotGO: no visible binding for global variable '.affylmGUIglobals'
plotGO : onOK: no visible binding for global variable
'affylmGUIenvironment'
plotGO : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
plotGO : onCancel: no visible binding for global variable
'.affylmGUIglobals'
plotGO : onOK: no visible binding for global variable
'.affylmGUIglobals'
plotVariantSI: no visible binding for global variable
'.affylmGUIglobals'
plotVariantSI : onOK: no visible binding for global variable
'affylmGUIenvironment'
plotVariantSI : onOK: no visible binding for global variable
'.affylmGUIglobals'
plotVariantSI : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
plotVariantSI: no visible binding for global variable
'affylmGUIenvironment'
qcMDS: no visible binding for global variable 'affylmGUIenvironment'
qcMDS: no visible binding for global variable '.affylmGUIglobals'
rankProd: no visible binding for global variable 'affylmGUIenvironment'
rankProd: no visible binding for global variable '.affylmGUIglobals'
rankProd : onOK: no visible binding for '<<-' assignment to 'ReturnVal'
rankProd : onOK: no visible binding for global variable
'.affylmGUIglobals'
rankProd : onCancel: no visible binding for '<<-' assignment to
'ReturnVal'
rankProd : onCancel: no visible binding for global variable
'.affylmGUIglobals'
rankProd : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
rankProd: no visible binding for global variable 'ReturnVal'
rankProd: no visible global function definition for 'getDataEnv'
rankingConversion: no visible binding for global variable
'affylmGUIenvironment'
rankingConversion: no visible binding for global variable
'.affylmGUIglobals'
rawBoxplotPN: no visible binding for global variable
'affylmGUIenvironment'
rawBoxplotPN: no visible binding for global variable
'.affylmGUIglobals'
rawpCheck: no visible binding for global variable
'affylmGUIenvironment'
rawpCheck: no visible binding for global variable '.affylmGUIglobals'
recoverUnfiltered: no visible binding for global variable
'.affylmGUIglobals'
recoverUnfiltered: no visible binding for global variable
'affylmGUIenvironment'
recoverUnfiltered: no visible binding for global variable 'x.exon'
refiningPeaks: no visible binding for global variable
'affylmGUIenvironment'
refiningPeaks: no visible binding for global variable
'.affylmGUIglobals'
refiningPeaks : onOK: no visible binding for global variable
'affylmGUIenvironment'
refiningPeaks : onOK: no visible binding for global variable
'.affylmGUIglobals'
refiningPeaks : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
reformatGdl: no visible binding for global variable '.affylmGUIglobals'
reformatGdl: no visible binding for global variable
'affylmGUIenvironment'
reformatGdl : onOK: no visible binding for global variable
'affylmGUIenvironment'
reformatGdl : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
refseqDownload: no visible binding for global variable
'.affylmGUIglobals'
refseqDownload: no visible binding for global variable
'affylmGUIenvironment'
retrieveMirTargets: no visible binding for global variable
'.affylmGUIglobals'
retrieveMirTargets : onCancel: no visible binding for global variable
'.affylmGUIglobals'
retrieveMirTargets : onOK: no visible binding for global variable
'.affylmGUIglobals'
retrieveMirTargets : <anonymous>: no visible binding for global
variable '.affylmGUIglobals'
retrieveMirTargets : onOK: no visible binding for global variable
'affylmGUIenvironment'
retrieveMirTargets: no visible binding for global variable
'affylmGUIenvironment'
retrievePSRseq: no visible binding for global variable
'.affylmGUIglobals'
retrievePSRseq: no visible binding for global variable
'affylmGUIenvironment'
retrievePSRseq1gid: no visible binding for global variable
'.affylmGUIglobals'
retrievePSRseq1gid: no visible binding for global variable
'affylmGUIenvironment'
retrievePSRseq1gid : onOK: no visible binding for global variable
'affylmGUIenvironment'
retrievePSRseq1gid : <anonymous>: no visible binding for global
variable '.affylmGUIglobals'
reviqrFilter: no visible binding for global variable
'.affylmGUIglobals'
reviqrFilter : onCancel: no visible binding for global variable
'.affylmGUIglobals'
reviqrFilter : onOK: no visible binding for global variable
'.affylmGUIglobals'
reviqrFilter : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
runningJetta: no visible binding for global variable
'.affylmGUIglobals'
runningJetta: no visible binding for global variable
'affylmGUIenvironment'
runningJetta: no visible binding for global variable 'tmp'
runningJetta : onOK: no visible binding for global variable
'.affylmGUIglobals'
runningJetta : onOK: no visible binding for global variable
'affylmGUIenvironment'
runningJetta : onCancel: no visible binding for global variable
'.affylmGUIglobals'
runningJetta : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
runningJetta: no visible global function definition for 'jetta.do.mads'
runningJetta: no visible global function definition for
'jetta.read.expression'
runningJetta: no visible global function definition for
'jetta.read.mads.output'
sample.size.evaluation: no visible binding for global variable
'affylmGUIenvironment'
sample.size.evaluation: no visible binding for global variable
'.affylmGUIglobals'
sample.size.evaluation : onOK: no visible binding for global variable
'affylmGUIenvironment'
sample.size.evaluation : <anonymous>: no visible binding for global
variable '.affylmGUIglobals'
sample.size.evaluation : common.sd: no visible binding for global
variable 'affylmGUIenvironment'
sample.size.evaluation : onCancel: no visible binding for global
variable '.affylmGUIglobals'
sample.size.evaluation : onOK: no visible binding for global variable
'.affylmGUIglobals'
sample.size.evaluation1: no visible binding for global variable
'affylmGUIenvironment'
sample.size.evaluation1: no visible binding for global variable
'.affylmGUIglobals'
sample.size.evaluation1 : onCancel: no visible binding for global
variable '.affylmGUIglobals'
sample.size.evaluation1 : onOK: no visible binding for global variable
'.affylmGUIglobals'
sample.size.evaluation1 : <anonymous>: no visible binding for global
variable '.affylmGUIglobals'
sample.size.evaluation1 : common.sd: no visible binding for global
variable 'affylmGUIenvironment'
showDataset: no visible binding for global variable
'affylmGUIenvironment'
showTopTable: no visible binding for global variable
'affylmGUIenvironment'
showTopTable : onHelp: possible error in help("topTable", htmlhelp =
TRUE): unused argument(s) (htmlhelp = TRUE)
showTopTable: no visible binding for global variable 'huex.annotation'
showTopTable: no visible binding for global variable 'moex.annotation'
showTopTable: no visible binding for global variable 'raex.annotation'
siggenes: no visible binding for global variable 'affylmGUIenvironment'
siggenes: no visible binding for global variable '.affylmGUIglobals'
siggenes : onOK: no visible binding for global variable
'affylmGUIenvironment'
siggenes : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
simFilter: no visible binding for global variable '.affylmGUIglobals'
simFilter : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
spliceIndex: no visible binding for global variable
'affylmGUIenvironment'
spliceIndex: no visible binding for global variable '.affylmGUIglobals'
startmeV: no visible binding for global variable 'affylmGUIenvironment'
startmeV: no visible binding for global variable '.affylmGUIglobals'
targetWidget: possible error in sub("^/?([^/]*/)*", "", widgetfiles,
extended = TRUE): unused argument(s) (extended = TRUE)
templA: no visible binding for global variable 'affylmGUIenvironment'
templA: no visible binding for global variable '.affylmGUIglobals'
templA : onCancel: no visible binding for global variable
'.affylmGUIglobals'
templA : onOK: no visible binding for global variable
'.affylmGUIglobals'
templA : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
templA: no visible binding for global variable 'huex.annotation'
templA: no visible binding for global variable 'moex.annotation'
templA: no visible binding for global variable 'raex.annotation'
trainTest: no visible binding for global variable
'affylmGUIenvironment'
trainTest: no visible binding for global variable '.affylmGUIglobals'
trainTest : onOK: no visible binding for global variable
'.affylmGUIglobals'
trainTest : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
trainTest : onCancel: no visible binding for global variable
'.affylmGUIglobals'
trainTest: possible error in Try(x = exprs(testAffyData)): unused
argument(s) (x = exprs(testAffyData))
trainTest : onOK: no visible binding for global variable
'affylmGUIenvironment'
updateLibs: no visible binding for global variable '.affylmGUIglobals'
updateLibs: no visible global function definition for
'biocinstallRepos'
variantExons: no visible binding for global variable
'.affylmGUIglobals'
variantSI: no visible binding for global variable '.affylmGUIglobals'
variantSI: no visible binding for global variable
'affylmGUIenvironment'
variantSI: no visible binding for global variable 'huex.variantexons'
variantSI: no visible binding for global variable 'moex.variantexons'
variantSI: no visible binding for global variable 'raex.variantexons'
whichKindOfArray: no visible binding for global variable
'affylmGUIenvironment'
whichKindOfArray: no visible binding for '<<-' assignment to
'ReturnVal'
whichKindOfArray: no visible binding for global variable
'.affylmGUIglobals'
whichKindOfArray : onOK: no visible binding for '<<-' assignment to
'ReturnVal'
whichKindOfArray : onOK: no visible binding for global variable
'.affylmGUIglobals'
whichKindOfArray : onCancel: no visible binding for global variable
'.affylmGUIglobals'
whichKindOfArray : <anonymous>: no visible binding for global variable
'.affylmGUIglobals'
whichKindOfArray: no visible binding for global variable 'ReturnVal'
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... WARNING
Warning: large data file(s) saved inefficiently:
size ASCII compress
bofa.rda 101Kb TRUE none
hsfa.rda 166Kb TRUE none
mmfa.rda 107Kb TRUE none
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... WARNING
Package vignette(s) without corresponding PDF:
NGS.Rnw
install.Rnw
oneChannelGUI.Rnw
standAloneFunctions.Rnw
whatIsNew.Rnw
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK
WARNING: There were 2 warnings, see
'D:/biocbld/bbs-2.8-bioc/meat/oneChannelGUI.Rcheck/00check.log'
for details
* installing *source* package 'oneChannelGUI' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
To begin, type oneChannelGUI()
* DONE (oneChannelGUI)