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IMPORTANT NOTE: R was configured with --enable-strict-barrier on lamb1 |
Package 160/247 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
oneChannelGUI1.3.27Raffaele A CalogeroLast Changed Date: 2007-08-26 09:47:31 -0700 Last Changed Rev: 26661 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | [ OK ] | |
wellington | Linux (SUSE 9.2) | i686 | OK | OK | ||
liverpool | Windows Server 2003 R2 (32-bit) | x64 | OK | OK | OK | |
pitt | Mac OS X (10.4.10) | i386 | OK | OK | OK |
Package: oneChannelGUI |
Version: 1.3.27 |
Command: /home/biocbuild/bbs-2.1-bioc/R/bin/R CMD check oneChannelGUI_1.3.27.tar.gz |
RetCode: 0 |
Time: 117.6 seconds |
Status: OK |
CheckDir: oneChannelGUI.Rcheck |
Warnings: 0 |
* checking for working latex ... OK * using log directory '/home/biocbuild/bbs-2.1-bioc/meat/oneChannelGUI.Rcheck' * using R version 2.6.0 Under development (unstable) (2007-08-06 r42439) * checking for file 'oneChannelGUI/DESCRIPTION' ... OK * this is package 'oneChannelGUI' version '1.3.27' * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'oneChannelGUI' can be installed ... OK * checking package directory ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking 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 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' .aptDir: 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' AptMidas: no visible binding for global variable 'tt' changeMenu: no visible binding for global variable 'affylmGUIenvironment' changeMenu: no visible binding for global variable '.affylmGUIglobals' ComputeContrasts: no visible binding for global variable 'affylmGUIenvironment' ComputeLinearModelFit: no visible binding for global variable 'affylmGUIenvironment' ComputeLinearModelFit: 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' 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' 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' erankProdAltSpl: no visible binding for global variable 'affylmGUIenvironment' erankProdAltSpl: no visible binding for global variable '.affylmGUIglobals' 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' ExportNormalizedExpressionValues: no visible binding for global variable 'affylmGUIenvironment' ExportNormalizedExpressionValues1: no visible binding for global variable 'affylmGUIenvironment' 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 'huex10stv2na22hg18' filteringTable: no visible binding for global variable '.affylmGUIglobals' 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' 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 'huex10stv2na22hg18' 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 'affylmGUIenvironment' inspecting.one.splice.index: 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 : onCancel: 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' IPAlistFilter: 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' 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' 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' 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' 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' myExpresso: no visible binding for global variable 'affylmGUIenvironment' myExpresso: no visible binding for global variable '.affylmGUIglobals' NewLimmaFile: no visible binding for global variable 'affylmGUIenvironment' NormalizeNow: no visible binding for global variable 'affylmGUIenvironment' NormalizeNow: 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' 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' 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' 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' 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' 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 binding for global variable 'annlib' 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' recoverUnfiltered: no visible binding for global variable 'x.exon' 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' 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' SaveAsLimmaFile: no visible binding for global variable 'affylmGUIenvironment' SaveAsLimmaFile: no visible binding for global variable '.affylmGUIglobals' showDataset: no visible binding for global variable 'affylmGUIenvironment' showTopTable: no visible binding for global variable 'affylmGUIenvironment' showTopTable: no visible binding for global variable 'annlib' 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' siggenes: no visible binding for global variable 'annlib' 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' 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' 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' 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' 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' Found possibly global 'T' or 'F' in the following functions: AptMidas crosshybFilter dfMAplot extractAffyids filteringTable GOenrichment inspecting.splice.index intronicBg IPAlistFilter listFilter masigpro.view metaArrayMerge ML.edesign myExpresso OpenAFile OpenAGeoFile OpenExonandTargetsfiles rankProd showTopTable siggenes targetWidget templA trainTest VennDiagram whichKindOfArray * checking Rd files ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking data for non-ASCII characters ... OK * creating oneChannelGUI-Ex.R ... OK * checking examples ... OK * checking package vignettes in 'inst/doc' ... OK * creating oneChannelGUI-manual.tex ... OK * checking oneChannelGUI-manual.tex ... OK
oneChannelGUI.Rcheck/00install.out:
* Installing *source* package 'oneChannelGUI' ... ** R ** data ** inst ** preparing package for lazy loading Loading required package: Biobase Loading required package: tools Welcome to Bioconductor Vignettes contain introductory material. To view, type 'openVignette()'. To cite Bioconductor, see 'citation("Biobase")' and for packages 'citation(pkgname)'. Loading required package: affylmGUI Loading required package: limma Loading required package: tcltk Loading Tcl/Tk interface ... done Loading required package: affy Loading required package: affyio Loading required package: preprocessCore Loading required package: tkWidgets Loading required package: widgetTools Loading required package: DynDoc ** help >>> Building/Updating help pages for package 'oneChannelGUI' Formats: text html latex example AptMidas text html latex example GOenrichment text html latex example IPAlistFilter text html latex example ML.edesign text html latex example OpenLargefiles text html latex example PlotOptionsv1 text html latex example VennDiagram text html latex example crosshybFilter text html latex example crosshybhuex10stv2na22hg18 text html latex crosshybmoex10stv1na22mm8 text html latex crosshybraex10stv1na22rn4 text html latex dfMAplot text html latex example erankProdAltSpl text html latex example erankProdAltSplFilterl text html latex example extractAffyids text html latex example filteringTable text html latex example geoVSbioc text html latex huex10stv2na22hg18 text html latex inspecting.one.splice.index text html latex example inspecting.splice.index text html latex example intensityFilter text html latex example iqrFilter text html latex example listFilter text html latex example masigpro text html latex example masigpro.edesign text html latex example masigpro.view text html latex example metaArrayIC text html latex example metaArrayMerge text html latex example moex10stv1na22mm8 text html latex myExpresso text html latex example ocPlotHist text html latex example ocPlotPCA text html latex example oneChannelGUI-package text html latex example oneChannelGUI text html latex example plierToZero text html latex example plotGO text html latex example raex10stv1na22rn4 text html latex rankProd text html latex example rawpCheck text html latex example reviqrFilter text html latex example sample.size.evaluation text html latex example sample.size.evaluation1 text html latex example showDataset text html latex example showTopTable text html latex example siggenes text html latex example simFilter text html latex example spliceIndex text html latex example targetWidget text html latex example templA text html latex example trainTest text html latex example ** building package indices ... * DONE (oneChannelGUI)