Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-10-16 12:19:19 -0400 (Wed, 16 Oct 2019).
Package 871/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
limmaGUI 1.60.0 Gordon Smyth
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | ![]() | ||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | ![]() |
Package: limmaGUI |
Version: 1.60.0 |
Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:limmaGUI.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings limmaGUI_1.60.0.tar.gz |
StartedAt: 2019-10-16 04:47:46 -0400 (Wed, 16 Oct 2019) |
EndedAt: 2019-10-16 04:48:54 -0400 (Wed, 16 Oct 2019) |
EllapsedTime: 68.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: limmaGUI.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:limmaGUI.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings limmaGUI_1.60.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/limmaGUI.Rcheck' * using R version 3.6.1 (2019-07-05) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'limmaGUI/DESCRIPTION' ... OK * this is package 'limmaGUI' version '1.60.0' * 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 whether package 'limmaGUI' can be installed ... OK * checking installed package size ... NOTE installed size is 7.7Mb sub-directories of 1Mb or more: doc 6.8Mb * 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 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 ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE AboutNormalization: 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 :: 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 : : 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 : : 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 : : 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 : : 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 : : 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' 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : 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 : : no visible binding for global variable '.limmaGUIglobals' Undefined global functions or variables: .HTML.file .limmaGUIglobals NEOffsetDefault ParameterizationNamesVec ebayes gif limmaDataSetNameText limmaGUIenvironment parameterizationIndex * 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 installed files from 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... NONE * checking for unstated dependencies in vignettes ... OK * checking package vignettes in 'inst/doc' ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See 'C:/Users/biocbuild/bbs-3.9-bioc/meat/limmaGUI.Rcheck/00check.log' for details.
limmaGUI.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/limmaGUI_1.60.0.tar.gz && rm -rf limmaGUI.buildbin-libdir && mkdir limmaGUI.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=limmaGUI.buildbin-libdir limmaGUI_1.60.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL limmaGUI_1.60.0.zip && rm limmaGUI_1.60.0.tar.gz limmaGUI_1.60.0.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 74 5317k 74 3984k 0 0 4927k 0 0:00:01 --:--:-- 0:00:01 4961k 100 5317k 100 5317k 0 0 6484k 0 --:--:-- --:--:-- --:--:-- 6532k install for i386 * installing *source* package 'limmaGUI' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'limmaGUI' finding HTML links ... done LGchangelog html limmaGUI html ** building package indices ** installing vignettes 'extract.Rnw' 'limmaGUI.Rnw' ** 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 install for x64 * installing *source* package 'limmaGUI' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'limmaGUI' as limmaGUI_1.60.0.zip * DONE (limmaGUI) * installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library' package 'limmaGUI' successfully unpacked and MD5 sums checked