Movatterモバイル変換

################################################################################################################################################################## Running command:######   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:limmaGUI.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings limmaGUI_1.86.0.tar.gz###############################################################################################################################################################* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/limmaGUI.Rcheck’* using R version 4.5.2 (2025-10-31)* using platform: x86_64-apple-darwin20* R was compiled by    Apple clang version 14.0.0 (clang-1400.0.29.202)    GNU Fortran (GCC) 14.2.0* running under: macOS Monterey 12.7.6* using session charset: UTF-8* using option ‘--no-vignettes’* checking for file ‘limmaGUI/DESCRIPTION’ ... OK* this is package ‘limmaGUI’ version ‘1.86.0’* checking package namespace information ... OK* checking package dependencies ... OK* 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 for sufficient/correct file permissions ... OK* checking whether package ‘limmaGUI’ can be installed ... OK* checking installed package size ... INFO  installed size is  7.5Mb  sub-directories of 1Mb or more:    doc   6.7Mb* checking package directory ... OK* checking ‘build’ directory ... OK* checking DESCRIPTION meta-information ... OK* checking top-level files ... OK* checking for left-over files ... OK* checking index information ... OK* checking package subdirectories ... OK* checking code 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 whether startup messages can be suppressed ... OK* checking 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 ... NOTEAboutNormalization: no visible binding for global variable  ‘.limmaGUIglobals’ChooseContrastsParameterization: no visible binding for global variable  ‘limmaGUIenvironment’ChooseContrastsParameterization: no visible binding for global variable  ‘ParameterizationNamesVec’ChooseContrastsParameterization: no visible binding for global variable  ‘parameterizationIndex’ChooseContrastsParameterization: no visible binding for global variable  ‘.limmaGUIglobals’ChooseContrastsParameterization : onOK: no visible binding for global  variable ‘.limmaGUIglobals’ChooseContrastsParameterization : onCancel: no visible binding for  global variable ‘.limmaGUIglobals’ChooseContrastsParameterization : <anonymous>: no visible binding for  global variable ‘.limmaGUIglobals’ChooseEbayesStatistic: no visible binding for global variable  ‘.limmaGUIglobals’ChooseEbayesStatistic : onOK: no visible binding for global variable  ‘.limmaGUIglobals’ChooseEbayesStatistic : onCancel: no visible binding for global  variable ‘.limmaGUIglobals’ChooseEbayesStatistic : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’ChooseParameterization: no visible binding for global variable  ‘limmaGUIenvironment’ChooseParameterization: no visible binding for global variable  ‘.limmaGUIglobals’ChooseParameterization : onOK: no visible binding for global variable  ‘.limmaGUIglobals’ChooseParameterization : onCancel: no visible binding for global  variable ‘.limmaGUIglobals’ChooseParameterization : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’ChoosePlotSymbolByClicking: no visible binding for global variable  ‘.limmaGUIglobals’ChoosePlotSymbolByClicking : LeftClick: no visible binding for global  variable ‘.limmaGUIglobals’ChoosePlotSymbolByClicking : onCancel: no visible binding for global  variable ‘.limmaGUIglobals’ChoosePlotSymbolByClicking : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’ChooseSpotType: no visible binding for global variable  ‘.limmaGUIglobals’ChooseSpotType : onOK: no visible binding for global variable  ‘.limmaGUIglobals’ChooseSpotType : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’ChooseSpotType : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’ComputeContrasts: no visible binding for global variable  ‘limmaGUIenvironment’ComputeContrasts: no visible binding for global variable  ‘.limmaGUIglobals’ComputeContrasts: no visible global function definition for ‘ebayes’ComputeLinearModelFit: no visible binding for global variable  ‘limmaGUIenvironment’ComputeLinearModelFit: no visible binding for global variable  ‘.limmaGUIglobals’ComputeLinearModelFit : GetDupCor: no visible binding for global  variable ‘.limmaGUIglobals’ComputeLinearModelFit : GetDupCor : onOK: no visible binding for global  variable ‘.limmaGUIglobals’ComputeLinearModelFit : GetDupCor : onCancel: no visible binding for  global variable ‘.limmaGUIglobals’ComputeLinearModelFit : GetDupCor : <anonymous>: no visible binding for  global variable ‘.limmaGUIglobals’ComputeLinearModelFit: no visible global function definition for  ‘ebayes’CreateNewParameterization: no visible binding for global variable  ‘limmaGUIenvironment’CreateNewParameterization: no visible binding for global variable  ‘.limmaGUIglobals’CreateTreeAndList: no visible binding for global variable  ‘limmaGUIenvironment’CreateTreeAndList: no visible binding for global variable  ‘.limmaGUIglobals’DeleteContrastsParameterization: no visible binding for global variable  ‘limmaGUIenvironment’DeleteContrastsParameterization: no visible binding for global variable  ‘.limmaGUIglobals’DeleteParameterization: no visible binding for global variable  ‘limmaGUIenvironment’DeleteParameterization: no visible binding for global variable  ‘.limmaGUIglobals’DupCorBoxPlot: no visible binding for global variable  ‘limmaGUIenvironment’DupCorBoxPlot: no visible binding for global variable  ‘.limmaGUIglobals’ExportAvalues: no visible binding for global variable  ‘limmaGUIenvironment’ExportHTMLreport: no visible binding for global variable  ‘limmaGUIenvironment’ExportHTMLreport: no visible binding for global variable  ‘.limmaGUIglobals’ExportHTMLreport: no visible global function definition for ‘toptable’ExportMvalues: no visible binding for global variable  ‘limmaGUIenvironment’GetBackgroundCorrectionMethod: no visible binding for global variable  ‘.limmaGUIglobals’GetBackgroundCorrectionMethod: no visible binding for global variable  ‘limmaGUIenvironment’GetBackgroundCorrectionMethod : onOK: no visible binding for global  variable ‘.limmaGUIglobals’GetBackgroundCorrectionMethod : onOK: no visible binding for global  variable ‘limmaGUIenvironment’GetBackgroundCorrectionMethod : <anonymous>: no visible binding for  global variable ‘.limmaGUIglobals’GetBetweenArrayNormalizationMethod: no visible binding for global  variable ‘.limmaGUIglobals’GetBetweenArrayNormalizationMethod: no visible binding for global  variable ‘limmaGUIenvironment’GetBetweenArrayNormalizationMethod : onOK: no visible binding for  global variable ‘limmaGUIenvironment’GetBetweenArrayNormalizationMethod : onOK: no visible binding for  global variable ‘.limmaGUIglobals’GetBetweenArrayNormalizationMethod : <anonymous>: no visible binding  for global variable ‘.limmaGUIglobals’GetCoef: no visible binding for global variable ‘limmaGUIenvironment’GetCoef: no visible binding for global variable ‘.limmaGUIglobals’GetCoef : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetCoef : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’GetCoef : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’GetComponentsToExportInHTMLreport: no visible binding for global  variable ‘limmaGUIenvironment’GetComponentsToExportInHTMLreport: no visible binding for global  variable ‘.limmaGUIglobals’GetComponentsToExportInHTMLreport : onOK: no visible binding for global  variable ‘.limmaGUIglobals’GetComponentsToExportInHTMLreport : onCancel: no visible binding for  global variable ‘.limmaGUIglobals’GetComponentsToExportInHTMLreport : <anonymous>: no visible binding for  global variable ‘.limmaGUIglobals’GetContrastsParameterizationName: no visible binding for global  variable ‘.limmaGUIglobals’GetContrastsParameterizationName : onOK: no visible binding for global  variable ‘.limmaGUIglobals’GetContrastsParameterizationName : onCancel: no visible binding for  global variable ‘.limmaGUIglobals’GetContrastsParameterizationName : <anonymous>: no visible binding for  global variable ‘.limmaGUIglobals’GetContrastsParameterizationNames: no visible binding for global  variable ‘limmaGUIenvironment’GetDEcutoff: no visible binding for global variable ‘.limmaGUIglobals’GetDEcutoff : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetDEcutoff : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’GetDEcutoff : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’GetDesignOrContrasts: no visible binding for global variable  ‘limmaGUIenvironment’GetDesignOrContrasts: no visible binding for global variable  ‘.limmaGUIglobals’GetDesignOrContrasts : GetDesignOrContrastsTable: no visible binding  for global variable ‘.limmaGUIglobals’GetDesignOrContrasts : GetDesignOrContrastsTable : onOK: no visible  binding for global variable ‘limmaGUIenvironment’GetDesignOrContrasts : GetDesignOrContrastsTable : onOK: no visible  binding for global variable ‘.limmaGUIglobals’GetDesignOrContrasts : GetDesignOrContrastsTable : onCancel: no visible  binding for global variable ‘.limmaGUIglobals’GetDesignOrContrasts : GetDesignOrContrastsTable : <anonymous>: no  visible binding for global variable ‘.limmaGUIglobals’GetDesignOrContrasts : OnAdvanced: no visible binding for global  variable ‘limmaGUIenvironment’GetDesignOrContrasts : OnAdvanced: no visible binding for global  variable ‘.limmaGUIglobals’GetDesignOrContrasts : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetDesignOrContrasts : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’GetDesignOrContrasts : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’GetGeneLabelsOptions: no visible binding for global variable  ‘.limmaGUIglobals’GetGeneLabelsOptions : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetGeneLabelsOptions : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’GetGeneLabelsOptions : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’GetGenePixFlagWeightings: no visible binding for global variable  ‘.limmaGUIglobals’GetGenePixFlagWeightings : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetGenePixFlagWeightings : onCancel: no visible binding for global  variable ‘.limmaGUIglobals’GetGenePixFlagWeightings : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’GetImageAnalysisColumnHeadings: no visible binding for global variable  ‘.limmaGUIglobals’GetImageAnalysisColumnHeadings : onOK: no visible binding for global  variable ‘.limmaGUIglobals’GetImageAnalysisColumnHeadings : onCancel: no visible binding for  global variable ‘.limmaGUIglobals’GetImageAnalysisColumnHeadings : <anonymous>: no visible binding for  global variable ‘.limmaGUIglobals’GetImageProcessingFileType: no visible binding for global variable  ‘.limmaGUIglobals’GetImageProcessingFileType: no visible binding for global variable  ‘limmaGUIenvironment’GetImageProcessingFileType : onOther: no visible binding for global  variable ‘.limmaGUIglobals’GetImageProcessingFileType : onOK: no visible binding for global  variable ‘.limmaGUIglobals’GetImageProcessingFileType : onCancel: no visible binding for global  variable ‘.limmaGUIglobals’GetImageProcessingFileType : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’GetJpegOrPngParams: no visible binding for global variable  ‘.limmaGUIglobals’GetJpegOrPngParams : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetJpegOrPngParams : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’GetJpegOrPngParams : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’GetJpegOrPngX11Params: no visible binding for global variable  ‘.limmaGUIglobals’GetJpegOrPngX11Params : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetJpegOrPngX11Params : onCancel: no visible binding for global  variable ‘.limmaGUIglobals’GetJpegOrPngX11Params : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’GetLowessType: no visible binding for global variable  ‘.limmaGUIglobals’GetLowessType : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetLowessType : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’GetNEWxlim: no visible binding for global variable ‘.limmaGUIglobals’GetNEWxlim : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetNEWxlim : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’GetNEWxlim : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’GetNormexpOffsetValue: no visible binding for global variable  ‘.limmaGUIglobals’GetNormexpOffsetValue : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetNormexpOffsetValue : onCancel: no visible binding for global  variable ‘.limmaGUIglobals’GetNormexpOffsetValue : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’GetNumParametersNoTargets: no visible binding for global variable  ‘limmaGUIenvironment’GetNumParametersNoTargets: no visible binding for global variable  ‘.limmaGUIglobals’GetNumParametersNoTargets : onOK: no visible binding for global  variable ‘limmaGUIenvironment’GetNumParametersNoTargets : onOK: no visible binding for global  variable ‘.limmaGUIglobals’GetNumParametersNoTargets : onCancel: no visible binding for global  variable ‘.limmaGUIglobals’GetNumParametersNoTargets : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’GetPValueCutoff: no visible binding for global variable  ‘.limmaGUIglobals’GetPValueCutoff : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetPValueCutoff : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’GetPValueCutoff : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’GetParameterNames: no visible binding for global variable  ‘limmaGUIenvironment’GetParameterizationName: no visible binding for global variable  ‘.limmaGUIglobals’GetParameterizationName : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetParameterizationName : onCancel: no visible binding for global  variable ‘.limmaGUIglobals’GetParameterizationName : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’GetParametersAndOrContrasts: no visible binding for global variable  ‘limmaGUIenvironment’GetParametersAndOrContrasts: no visible binding for global variable  ‘.limmaGUIglobals’GetParametersAndOrContrasts : onOK: no visible binding for global  variable ‘.limmaGUIglobals’GetParametersAndOrContrasts : onCancel: no visible binding for global  variable ‘.limmaGUIglobals’GetParametersAndOrContrasts : <anonymous>: no visible binding for  global variable ‘.limmaGUIglobals’GetPlotLabels: no visible binding for global variable  ‘.limmaGUIglobals’GetPlotLabels : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetPlotLabels : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’GetPlotLabels : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’GetPlotSize: no visible binding for global variable ‘.limmaGUIglobals’GetPlotSize : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetPlotSize : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’GetPlotSize : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’GetPlotTitle: no visible binding for global variable ‘.limmaGUIglobals’GetPlotTitle : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetPlotTitle : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’GetPlotTitle : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’GetReducedDuplicateSpacing: no visible binding for global variable  ‘limmaGUIenvironment’GetSlideNum: no visible binding for global variable  ‘limmaGUIenvironment’GetSlideNum: no visible binding for global variable ‘.limmaGUIglobals’GetSlideNum : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetSlideNum : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’GetSlideNum : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’GetSpotTypesForLinearModel: no visible binding for global variable  ‘limmaGUIenvironment’GetSpotTypesForLinearModel: no visible binding for global variable  ‘.limmaGUIglobals’GetSpotTypesForLinearModel : onOK: no visible binding for global  variable ‘.limmaGUIglobals’GetSpotTypesForLinearModel : onCancel: no visible binding for global  variable ‘.limmaGUIglobals’GetSpotTypesForLinearModel : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’GetSpotTypesIncludedNames: no visible binding for global variable  ‘limmaGUIenvironment’GetWithinArrayNormalizationMethod: no visible binding for global  variable ‘.limmaGUIglobals’GetWithinArrayNormalizationMethod: no visible binding for global  variable ‘limmaGUIenvironment’GetWithinArrayNormalizationMethod : onOK: no visible binding for global  variable ‘limmaGUIenvironment’GetWithinArrayNormalizationMethod : onOK: no visible binding for global  variable ‘.limmaGUIglobals’GetWithinArrayNormalizationMethod : <anonymous>: no visible binding for  global variable ‘.limmaGUIglobals’GetWtAreaParams: no visible binding for global variable  ‘.limmaGUIglobals’GetWtAreaParams : onOK: no visible binding for global variable  ‘limmaGUIenvironment’GetWtAreaParams : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetWtAreaParams : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’GetWtAreaParams : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’GetlimmaDataSetName: no visible binding for global variable  ‘limmaGUIenvironment’GetlimmaDataSetName: no visible binding for global variable  ‘.limmaGUIglobals’GetlimmaDataSetName : onOK: no visible binding for global variable  ‘limmaGUIenvironment’GetlimmaDataSetName : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’GetlmFitMethod: no visible binding for global variable  ‘.limmaGUIglobals’GetlmFitMethod: no visible binding for global variable  ‘limmaGUIenvironment’GetlmFitMethod : onOK: no visible binding for global variable  ‘limmaGUIenvironment’GetlmFitMethod : onOK: no visible binding for global variable  ‘.limmaGUIglobals’GetlmFitMethod : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’HTMLplotUsingFunction: no visible binding for global variable  ‘.HTML.file’HTMLplotUsingFunction: no visible binding for global variable ‘gif’HeatDiagramDialog: no visible binding for global variable  ‘.limmaGUIglobals’HeatDiagramDialog : onOK: no visible binding for global variable  ‘.limmaGUIglobals’HeatDiagramDialog : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’HeatDiagramDialog : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’HeatDiagramPlot: no visible binding for global variable  ‘limmaGUIenvironment’HeatDiagramPlot: no visible binding for global variable  ‘.limmaGUIglobals’HowManyDups: no visible binding for global variable  ‘limmaGUIenvironment’HowManyDups: no visible binding for global variable ‘.limmaGUIglobals’HowManyDups : onOK: no visible binding for global variable  ‘limmaGUIenvironment’HowManyDups : onOK: no visible binding for global variable  ‘.limmaGUIglobals’HowManyDups : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’HowManyDups : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’ImageArrayPlot: no visible binding for global variable  ‘limmaGUIenvironment’ImageArrayPlot: no visible binding for global variable  ‘.limmaGUIglobals’ImageArrayPlotDialog: no visible binding for global variable  ‘limmaGUIenvironment’ImageArrayPlotDialog: no visible binding for global variable  ‘.limmaGUIglobals’ImageArrayPlotDialog : onOK: no visible binding for global variable  ‘.limmaGUIglobals’ImageArrayPlotDialog : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’ImageArrayPlotDialog : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’ImportMA: no visible binding for global variable ‘limmaGUIenvironment’ImportMA: no visible binding for global variable ‘.limmaGUIglobals’ImportMADialog: no visible binding for global variable  ‘.limmaGUIglobals’ImportMADialog : onOK: no visible binding for global variable  ‘.limmaGUIglobals’ImportMADialog : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’ImportMADialog : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’InitNewParameterization: no visible binding for global variable  ‘limmaGUIenvironment’InitNewParameterization: no visible binding for global variable  ‘.limmaGUIglobals’LogOddsPlot: no visible binding for global variable  ‘limmaGUIenvironment’LogOddsPlot: no visible binding for global variable ‘.limmaGUIglobals’MAPlot: no visible binding for global variable ‘limmaGUIenvironment’MAPlot: no visible binding for global variable ‘.limmaGUIglobals’MAPlotAvg: no visible binding for global variable ‘limmaGUIenvironment’MAPlotAvg: no visible binding for global variable ‘.limmaGUIglobals’MAPlotAvg : plotAvgMA: no visible binding for global variable  ‘limmaGUIenvironment’MBoxPlot: no visible binding for global variable ‘limmaGUIenvironment’MBoxPlot: no visible binding for global variable ‘.limmaGUIglobals’MMPlot: no visible binding for global variable ‘limmaGUIenvironment’MMPlot: no visible binding for global variable ‘.limmaGUIglobals’NewLimmaFile: no visible binding for global variable  ‘limmaGUIenvironment’NormalizeNow: no visible binding for global variable  ‘limmaGUIenvironment’NormalizeNow: no visible binding for global variable ‘.limmaGUIglobals’OpenALimmaFile: no visible binding for global variable  ‘limmaGUIenvironment’OpenGALFile: no visible binding for global variable  ‘limmaGUIenvironment’OpenGALandTargetsandSpotTypesfiles : onOK: no visible binding for  global variable ‘limmaGUIenvironment’OpenSpotTypesFile: no visible binding for global variable  ‘limmaGUIenvironment’OpenTargetsFile: no visible binding for global variable  ‘limmaGUIenvironment’PlotOptions: no visible binding for global variable ‘.limmaGUIglobals’PlotOptions : onOK: no visible binding for global variable  ‘.limmaGUIglobals’PlotOptions : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’PrintTipGroupMAPlot: no visible binding for global variable  ‘limmaGUIenvironment’PrintTipGroupMAPlot: no visible binding for global variable  ‘.limmaGUIglobals’QQTplot: no visible binding for global variable ‘limmaGUIenvironment’QQTplot: no visible binding for global variable ‘.limmaGUIglobals’ReadImageProcessingFiles: no visible binding for global variable  ‘limmaGUIenvironment’ReadImageProcessingFiles: no visible binding for global variable  ‘.limmaGUIglobals’SaveAsLimmaFile: no visible binding for global variable  ‘limmaGUIenvironment’SaveAsLimmaFile: no visible binding for global variable  ‘.limmaGUIglobals’SaveLimmaFile: no visible binding for global variable  ‘limmaGUIenvironment’SaveLimmaFile: no visible binding for global variable  ‘.limmaGUIglobals’SelectPlotSymbols: no visible binding for global variable  ‘.limmaGUIglobals’SelectPlotSymbols : onBrowse: no visible binding for global variable  ‘.limmaGUIglobals’SelectPlotSymbols : onOK: no visible binding for global variable  ‘.limmaGUIglobals’SelectPlotSymbols : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’SelectPlotSymbols : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’SetLayoutParameters: no visible binding for global variable  ‘limmaGUIenvironment’SetLayoutParameters: no visible binding for global variable  ‘.limmaGUIglobals’SetLayoutParameters : GetFromGAL: no visible binding for global  variable ‘limmaGUIenvironment’SetLayoutParameters : onOK: no visible binding for global variable  ‘limmaGUIenvironment’SetLayoutParameters : onOK: no visible binding for global variable  ‘.limmaGUIglobals’SetLayoutParameters : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’SetLayoutParameters : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’SetWD: no visible binding for global variable ‘.limmaGUIglobals’TclRequire: no visible binding for global variable ‘.limmaGUIglobals’TclRequire : onDestroy: no visible binding for global variable  ‘.limmaGUIglobals’TclRequire : onOK: no visible binding for global variable  ‘.limmaGUIglobals’TclRequire : onOK: no visible binding for global variable  ‘limmaGUIenvironment’UpDownOrBoth: no visible binding for global variable ‘.limmaGUIglobals’UpDownOrBoth : onOK: no visible binding for global variable  ‘.limmaGUIglobals’UpDownOrBoth : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’UpdateSpotTypesStatus: no visible binding for global variable  ‘limmaGUIenvironment’VennDiagramPlot: no visible binding for global variable  ‘limmaGUIenvironment’VennDiagramPlot: no visible binding for global variable  ‘.limmaGUIglobals’ViewDesignOrContrastsMatrixAsPairs: no visible binding for global  variable ‘limmaGUIenvironment’ViewDesignOrContrastsMatrixAsPairs: no visible binding for global  variable ‘.limmaGUIglobals’ViewDesignOrContrastsMatrixAsPairs : onOK: no visible binding for  global variable ‘.limmaGUIglobals’ViewDesignOrContrastsMatrixAsPairs : <anonymous>: no visible binding  for global variable ‘.limmaGUIglobals’ViewDesignOrContrastsMatrixInTable: no visible binding for global  variable ‘limmaGUIenvironment’ViewDesignOrContrastsMatrixInTable: no visible binding for global  variable ‘.limmaGUIglobals’ViewDesignOrContrastsMatrixInTable : onClose: no visible binding for  global variable ‘.limmaGUIglobals’ViewDesignOrContrastsMatrixInTable : <anonymous>: no visible binding  for global variable ‘.limmaGUIglobals’ViewExistingContrastsParameterization: no visible binding for global  variable ‘limmaGUIenvironment’ViewExistingContrastsParameterization: no visible binding for global  variable ‘.limmaGUIglobals’ViewExistingParameterization: no visible binding for global variable  ‘limmaGUIenvironment’ViewExistingParameterization: no visible binding for global variable  ‘.limmaGUIglobals’ViewRNATargets: no visible binding for global variable  ‘limmaGUIenvironment’ViewRNATargets: no visible binding for global variable  ‘.limmaGUIglobals’ViewRNATargets : onClose: no visible binding for global variable  ‘.limmaGUIglobals’ViewRNATargets : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’ViewSpotTypes: no visible binding for global variable  ‘limmaGUIenvironment’ViewSpotTypes: no visible binding for global variable  ‘.limmaGUIglobals’ViewSpotTypes : onUpdate: no visible binding for global variable  ‘limmaGUIenvironment’ViewSpotTypes : onUpdate: no visible binding for global variable  ‘.limmaGUIglobals’ViewSpotTypes : onClose: no visible binding for global variable  ‘.limmaGUIglobals’ViewSpotTypes : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’WithinBetweenOrBoth: no visible binding for global variable  ‘.limmaGUIglobals’WithinBetweenOrBoth : onOK: no visible binding for global variable  ‘.limmaGUIglobals’WithinBetweenOrBoth : <anonymous>: no visible binding for global  variable ‘.limmaGUIglobals’chooseDir: no visible binding for global variable ‘.limmaGUIglobals’ebayesBoxPlots: no visible binding for global variable  ‘limmaGUIenvironment’ebayesBoxPlots: no visible binding for global variable  ‘.limmaGUIglobals’ebayesBoxPlots: no visible binding for global variable  ‘limmaDataSetNameText’evalRcode: no visible binding for global variable ‘.limmaGUIglobals’evalRcode : runOverall: no visible binding for global variable  ‘.limmaGUIglobals’evalRcode : runOverall: no visible binding for global variable  ‘limmaGUIenvironment’initGlobals: no visible binding for global variable  ‘limmaGUIenvironment’initGlobals: no visible binding for '<<-' assignment to  ‘NEOffsetDefault’initGlobals: no visible binding for global variable ‘NEOffsetDefault’limmaGUI: no visible binding for global variable ‘limmaGUIenvironment’limmaGUI: no visible binding for global variable ‘.limmaGUIglobals’limmaGUI : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’onDestroy: no visible binding for global variable ‘limmaGUIenvironment’onExit: no visible binding for global variable ‘limmaGUIenvironment’onExit: no visible binding for global variable ‘.limmaGUIglobals’plotMAColorCoded: no visible binding for global variable  ‘limmaGUIenvironment’plotMAColorCoded: no visible binding for global variable  ‘.limmaGUIglobals’showGAL: no visible binding for global variable ‘limmaGUIenvironment’showGAL: no visible binding for global variable ‘.limmaGUIglobals’showTopTable: no visible binding for global variable  ‘limmaGUIenvironment’showTopTable: no visible binding for global variable ‘.limmaGUIglobals’showTopTable : onOK: no visible binding for global variable  ‘.limmaGUIglobals’showTopTable : onCancel: no visible binding for global variable  ‘.limmaGUIglobals’showTopTable : <anonymous>: no visible binding for global variable  ‘.limmaGUIglobals’showTopTable: no visible global function definition for ‘toptable’Undefined global functions or variables:  .HTML.file .limmaGUIglobals NEOffsetDefault ParameterizationNamesVec  ebayes gif limmaDataSetNameText limmaGUIenvironment  parameterizationIndex toptable* 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 sizes of PDF files under ‘inst/doc’ ... OK* checking installed files from ‘inst/doc’ ... OK* checking files in ‘vignettes’ ... OK* checking examples ... NONE* checking for unstated dependencies in vignettes ... OK* checking package vignettes ... OK* checking running R code from vignettes ... SKIPPED* checking re-building of vignette outputs ... SKIPPED* checking PDF version of manual ... OK* DONEStatus: 1 NOTESee  ‘/Users/biocbuild/bbs-3.22-bioc/meat/limmaGUI.Rcheck/00check.log’for details.

################################################################################################################################################################## Running command:######   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL limmaGUI###############################################################################################################################################################* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library’* installing *source* package ‘limmaGUI’ ...** this is package ‘limmaGUI’ version ‘1.86.0’** using staged installation** R** inst** byte-compile and prepare package for lazy loading** help*** installing help indices** building package indices** installing vignettes** testing if installed package can be loaded from temporary location** testing if installed package can be loaded from final location** testing if installed package keeps a record of temporary installation path* DONE (limmaGUI)