- using R version 2.11.0 Under development (unstable) (2009-11-24 r50554)
- using session charset: UTF-8
- checking for file 'SweaveListingUtils/DESCRIPTION' ... OK
- this is package 'SweaveListingUtils' version '0.4'
- package encoding: latin1
- checking package name space information ... OK
- checking package dependencies ... OK
- checking if this is a source package ... OK
- checking for executable files ... OK
- checking whether package 'SweaveListingUtils' 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 whether the package can be unloaded cleanly ... OK
- checking whether the name space can be loaded with stated dependencies ... OK
- checking whether the name space 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 ... OK
- 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 examples ... OK
- checking differences from 'SweaveListingUtils-Ex.Rout' to 'SweaveListingUtils-Ex.Rout.save' ...
37,38c37,38
< > cleanEx()
< > nameEx("SweaveListingMASK")
---
> > assign(".oldNS", loadedNamespaces(), pos = 'CheckExEnv')
> > cleanEx(); nameEx("SweaveListingMASK")
83,84c83
< > cleanEx()
< > nameEx("SweaveListingOptions")
---
> > cleanEx(); nameEx("SweaveListingOptions")
276,277c275
< > cleanEx()
< > nameEx("SweaveListingPreparations")
---
> > cleanEx(); nameEx("SweaveListingPreparations")
408,412c406,410
< morekeywords={[2]taglist,setToBeDefinedPkgs,setBaseOrRecommended,readSourceFromRForge,readPkgVersion,%
< lstsetRout,lstsetRin,lstsetRd,lstsetRcode,lstsetRall,%
< lstsetR,lstsetLanguage,lstset,lstinputSourceFromRForge,lstdefRstyle,%
< isBaseOrRecommended,getSweaveListingOption,copySourceFromRForge,changeKeywordstyles,SweaveListingoptions,%
< SweaveListingPreparations,SweaveListingOptions,SweaveListingMASK%
---
> morekeywords={[2]taglist,SweaveListingPreparations,SweaveListingOptions,SweaveListingoptions,SweaveListingMASK,%
> setToBeDefinedPkgs,setBaseOrRecommended,readSourceFromRForge,readPkgVersion,lstsetRout,%
> lstsetRin,lstsetRd,lstsetRcode,lstsetRall,lstsetR,%
> lstsetLanguage,lstset,lstinputSourceFromRForge,lstdefRstyle,isBaseOrRecommended,%
> getSweaveListingOption,copySourceFromRForge,changeKeywordstyles%
419,422c417,420
< morekeywords={[3]suppressStartupMessages,startupType,startupPackage,startupMessage,startupEndline,%
< readVersionInformation,readURLInformation,pointertoNEWS,onlytypeStartupMessages,mystartupMessage,%
< mySMHandler,infoShow,buildStartupMessage,TOBEDONE,StartupMessage,%
< NEWS%
---
> morekeywords={[3]TOBEDONE,suppressStartupMessages,startupType,startupPackage,StartupMessage,%
> startupMessage,startupEndline,readVersionInformation,readURLInformation,pointertoNEWS,%
> onlytypeStartupMessages,NEWS,mystartupMessage,mySMHandler,infoShow,%
> buildStartupMessage%
430,494c428,492
< weighted.mean,vcov,varimax,variable.names,var.test,%
< update.formula,update.default,tsp<-,tsdiag,tsSmooth,%
< ts.union,ts.plot,ts.intersect,toeplitz,terms.terms,%
< terms.formula,terms.default,terms.aovlist,termplot,t.test,%
< supsmu,summary.stepfun,summary.mlm,summary.manova,summary.lm,%
< summary.infl,summary.glm,summary.aovlist,summary.aov,stl,%
< stepfun,stat.anova,splinefunH,spectrum,spec.taper,%
< spec.pgram,spec.ar,sortedXyData,smoothEnds,smooth.spline,%
< smooth,simulate,shapiro.test,setNames,selfStart,%
< se.contrast,screeplot,scatter.smooth,runmed,rstudent.lm,%
< rstudent.glm,rstandard.lm,rstandard.glm,rmultinom,residuals.lm,%
< residuals.glm,residuals.default,reshapeWide,reshapeLong,reshape,%
< reorder,rect.hclust,read.ftable,r2dtable,quasipoisson,%
< quasibinomial,quantile.default,quade.test,qqnorm.default,qbirthday,%
< prop.trend.test,prop.test,promax,printCoefmat,print.ts,%
< print.terms,print.logLik,print.lm,print.integrate,print.infl,%
< print.glm,print.ftable,print.formula,print.family,print.density,%
< print.coefmat,print.anova,princomp,predict.poly,predict.mlm,%
< predict.lm,predict.glm,prcomp,ppr,power.t.test,%
< power.prop.test,power.anova.test,polym,poisson.test,plot.ts,%
< plot.stepfun,plot.spec.phase,plot.spec.coherency,plot.spec,plot.mlm,%
< plot.lm,plot.ecdf,plot.density,plot.TukeyHSD,plclust,%
< pbirthday,pairwise.wilcox.test,pairwise.table,pairwise.t.test,pairwise.prop.test,%
< pacf,p.adjust.methods,p.adjust,order.dendrogram,oneway.test,%
< numericDeriv,nls.control,nls,nlminb,naresid,%
< naprint,napredict,na.pass,na.omit,na.fail,%
< na.exclude,na.contiguous,na.action,mood.test,monthplot,%
< model.weights,model.tables,model.response,model.offset,model.matrix.lm,%
< model.matrix.default,model.matrix,model.frame.lm,model.frame.glm,model.frame.default,%
< model.frame.aovlist,model.frame,model.extract,medpolish,median.default,%
< mcnemar.test,mauchly.test,mauchley.test,mantelhaen.test,manova,%
< makepredictcall,makeARIMA,make.link,ls.print,ls.diag,%
< logLik,loess.smooth,loess.control,loess,loadings,%
< lm.wfit.null,lm.wfit,lm.influence,lm.fit.null,lm.fit,%
< lines.ts,line,lag.plot,lag,ksmooth,%
< ks.test,kruskal.test,knots,kmeans,kernel,%
< kernapply,isoreg,is.tskernel,is.ts,is.stepfun,%
< is.mts,is.leaf,is.empty.model,inverse.gaussian,interaction.plot,%
< integrate,influence.measures,heatmap,hclust,hatvalues.lm,%
< hatvalues,glm.fit.null,glm.fit,glm.control,get_all_vars,%
< getInitial,friedman.test,fligner.test,fitted.values,fisher.test,%
< filter,factor.scope,factanal,expand.model.frame,estVar,%
< embed,eff.aovlist,ecdf,dummy.coef,drop.terms,%
< drop.scope,dmultinom,dist,diffinv,diff.ts,%
< dfbeta,df.residual,df.kernel,deriv3.formula,deriv3.default,%
< deriv3,deriv.formula,deriv.default,density.default,dendrapply,%
< delete.response,decompose,cutree,cpgram,cov2cor,%
< cov.wt,cor.test,cophenetic,cooks.distance,contrasts<-,%
< contr.treatment,contr.sum,contr.poly,contr.helmert,contr.SAS,%
< constrOptim,confint.default,confint,complete.cases,cmdscale,%
< clearNames,chisq.test,ccf,case.names,cancor,%
< bw.ucv,bw.nrd0,bw.nrd,bw.bcv,bw.SJ,%
< biplot,binom.test,bartlett.test,bandwidth.kernel,asOneSidedFormula,%
< as.ts,as.stepfun,as.hclust,as.formula,as.dist,%
< as.dendrogram,arima0.diag,arima0,arima.sim,arima,%
< ar.yw,ar.ols,ar.mle,ar.burg,ar,%
< ansari.test,anovalist.lm,anova.mlm,anova.lmlist,anova.lm,%
< anova.glmlist,anova.glm,aggregate.ts,aggregate.default,aggregate.data.frame,%
< addmargins,add.scope,acf2AR,acf,TukeyHSD.aov,%
< TukeyHSD,StructTS,SSweibull,SSmicmen,SSlogis,%
< SSgompertz,SSfpl,SSfol,SSbiexp,SSasympOrig,%
< SSasympOff,SSasymp,SSD,PP.test,NLSstRtAsymptote,%
< NLSstLfAsymptote,NLSstClosestX,NLSstAsymptotic,KalmanSmooth,KalmanRun,%
< KalmanLike,KalmanForecast,HoltWinters,Box.test,ARMAtoMA,%
< ARMAacf,AIC%
---
> weighted.mean,vcov,var.test,varimax,variable.names,%
> update.formula,update.default,TukeyHSD.aov,TukeyHSD,t.test,%
> ts.union,tsSmooth,ts.plot,tsp<-,ts.intersect,%
> tsdiag,toeplitz,terms.terms,terms.formula,terms.default,%
> terms.aovlist,termplot,supsmu,summary.stepfun,summary.mlm,%
> summary.manova,summary.lm,summary.infl,summary.glm,summary.aovlist,%
> summary.aov,StructTS,stl,stepfun,stat.anova,%
> SSweibull,SSmicmen,SSlogis,SSgompertz,SSfpl,%
> SSfol,SSD,SSbiexp,SSasympOrig,SSasympOff,%
> SSasymp,splinefunH,spectrum,spec.taper,spec.pgram,%
> spec.ar,sortedXyData,smooth.spline,smoothEnds,smooth,%
> simulate,shapiro.test,setNames,selfStart,se.contrast,%
> screeplot,scatter.smooth,runmed,rstudent.lm,rstudent.glm,%
> rstandard.lm,rstandard.glm,rmultinom,residuals.lm,residuals.glm,%
> residuals.default,reshapeWide,reshapeLong,reshape,reorder,%
> rect.hclust,read.ftable,r2dtable,quasipoisson,quasibinomial,%
> quantile.default,quade.test,qqnorm.default,qbirthday,prop.trend.test,%
> prop.test,promax,print.ts,print.terms,print.logLik,%
> print.lm,print.integrate,print.infl,print.glm,print.ftable,%
> print.formula,print.family,print.density,printCoefmat,print.coefmat,%
> print.anova,princomp,predict.poly,predict.mlm,predict.lm,%
> predict.glm,prcomp,PP.test,ppr,power.t.test,%
> power.prop.test,power.anova.test,polym,poisson.test,plot.TukeyHSD,%
> plot.ts,plot.stepfun,plot.spec.phase,plot.spec.coherency,plot.spec,%
> plot.mlm,plot.lm,plot.ecdf,plot.density,plclust,%
> pbirthday,pairwise.wilcox.test,pairwise.t.test,pairwise.table,pairwise.prop.test,%
> p.adjust.methods,p.adjust,pacf,order.dendrogram,oneway.test,%
> numericDeriv,NLSstRtAsymptote,NLSstLfAsymptote,NLSstClosestX,NLSstAsymptotic,%
> nls.control,nls,nlminb,naresid,naprint,%
> napredict,na.pass,na.omit,na.fail,na.exclude,%
> na.contiguous,na.action,mood.test,monthplot,model.weights,%
> model.tables,model.response,model.offset,model.matrix.lm,model.matrix.default,%
> model.matrix,model.frame.lm,model.frame.glm,model.frame.default,model.frame.aovlist,%
> model.frame,model.extract,medpolish,median.default,mcnemar.test,%
> mauchly.test,mauchley.test,mantelhaen.test,manova,makepredictcall,%
> make.link,makeARIMA,ls.print,ls.diag,logLik,%
> loess.smooth,loess.control,loess,loadings,lm.wfit.null,%
> lm.wfit,lm.influence,lm.fit.null,lm.fit,lines.ts,%
> line,lag.plot,lag,ks.test,ksmooth,%
> kruskal.test,knots,kmeans,kernel,kernapply,%
> KalmanSmooth,KalmanRun,KalmanLike,KalmanForecast,is.tskernel,%
> is.ts,is.stepfun,isoreg,is.mts,is.leaf,%
> is.empty.model,inverse.gaussian,interaction.plot,integrate,influence.measures,%
> HoltWinters,heatmap,hclust,hatvalues.lm,hatvalues,%
> glm.fit.null,glm.fit,glm.control,getInitial,get_all_vars,%
> friedman.test,fligner.test,fitted.values,fisher.test,filter,%
> factor.scope,factanal,expand.model.frame,estVar,embed,%
> eff.aovlist,ecdf,dummy.coef,drop.terms,drop.scope,%
> dmultinom,dist,diff.ts,diffinv,df.residual,%
> df.kernel,dfbeta,deriv.formula,deriv.default,deriv3.formula,%
> deriv3.default,deriv3,density.default,dendrapply,delete.response,%
> decompose,cutree,cpgram,cov.wt,cov2cor,%
> cor.test,cophenetic,cooks.distance,contr.treatment,contr.sum,%
> contr.SAS,contr.poly,contr.helmert,contrasts<-,constrOptim,%
> confint.default,confint,complete.cases,cmdscale,clearNames,%
> chisq.test,ccf,case.names,cancor,bw.ucv,%
> bw.SJ,bw.nrd0,bw.nrd,bw.bcv,Box.test,%
> biplot,binom.test,bartlett.test,bandwidth.kernel,as.ts,%
> as.stepfun,asOneSidedFormula,as.hclust,as.formula,as.dist,%
> as.dendrogram,ar.yw,ar.ols,ar.mle,ARMAtoMA,%
> ARMAacf,arima.sim,arima0.diag,arima0,arima,%
> ar.burg,ar,ansari.test,anova.mlm,anova.lmlist,%
> anova.lm,anovalist.lm,anova.glmlist,anova.glm,AIC,%
> aggregate.ts,aggregate.default,aggregate.data.frame,add.scope,addmargins,%
> acf2AR,acf%
507,508c505,506
< cdplot,boxplot.matrix,boxplot.default,barplot.default,axis.POSIXct,%
< axis.Date,axTicks,assocplot,Axis%
---
> cdplot,boxplot.matrix,boxplot.default,barplot.default,axTicks,%
> axis.POSIXct,axis.Date,Axis,assocplot%
515,531c513,528
< morekeywords={[6]xyz.coords,xyTable,xy.coords,xfig,trans3d,%
< topo.colors,tiff,terrain.colors,svg,setPS,%
< setEPS,savePlot,rgb2hsv,replayPlot,recordPlot,%
< recordGraphics,raster,quartzFonts,quartzFont,quartz.options,%
< quartz,ps.options,postscriptFonts,postscriptFont,png,%
< pdfFonts,pdf.options,pdf,nclass.scott,nclass.Sturges,%
< nclass.FD,n2mfrow,make.rgb,jpeg,is.raster,%
< heat.colors,hcl,grey.colors,gray.colors,graphics.off,%
< getGraphicsEvent,extendrange,embedFonts,deviceIsInteractive,devAskNewPage,%
< dev.size,dev.set,dev.print,dev.prev,dev.off,%
< dev.next,dev.new,dev.list,dev.interactive,dev.cur,%
< dev.copy2pdf,dev.copy2eps,dev.copy,dev.control,densCols,%
< convertColor,contourLines,colorspaces,colorRampPalette,colorRamp,%
< colorConverter,col2rgb,cm.colors,check.options,cairo_ps,%
< cairo_pdf,boxplot.stats,bmp,blues9,bitmap,%
< as.raster,as.graphicsAnnot,X11Fonts,X11Font,X11.options,%
< Type1Font,Hershey,CIDFont%
---
> morekeywords={[6]xyz.coords,xyTable,xy.coords,xfig,X11.options,%
> X11Fonts,X11Font,Type1Font,trans3d,topo.colors,%
> tiff,terrain.colors,svg,setPS,setEPS,%
> savePlot,rgb2hsv,replayPlot,recordPlot,recordGraphics,%
> quartz.options,quartzFonts,quartzFont,quartz,ps.options,%
> postscriptFonts,postscriptFont,png,pdf.options,pdfFonts,%
> pdf,nclass.Sturges,nclass.scott,nclass.FD,n2mfrow,%
> make.rgb,jpeg,Hershey,heat.colors,hcl,%
> grey.colors,gray.colors,graphics.off,getGraphicsEvent,extendrange,%
> embedFonts,dev.size,dev.set,dev.print,dev.prev,%
> dev.off,dev.next,dev.new,dev.list,dev.interactive,%
> deviceIsInteractive,dev.cur,dev.copy2pdf,dev.copy2eps,dev.copy,%
> dev.control,devAskNewPage,densCols,convertColor,contourLines,%
> colorspaces,colorRampPalette,colorRamp,colorConverter,col2rgb,%
> cm.colors,CIDFont,check.options,cairo_ps,cairo_pdf,%
> boxplot.stats,bmp,blues9,bitmap,as.graphicsAnnot%
539,553c536,555
< write.csv,vignette,url.show,upgrade,update.packages,%
< update.packageStatus,unzip,untar,unstack,type.convert,%
< txtProgressBar,toLatex,toBibtex,timestamp,tar,%
< tail.matrix,tail,summaryRprof,strOptions,str,%
< stack,setTxtProgressBar,setRepositories,setBreakpoint,sessionInfo,%
< select.list,savehistory,rtags,remove.packages,relist,%
< recover,readCitationFile,read.table,read.socket,read.fwf,%
< read.fortran,read.delim2,read.delim,read.csv2,read.csv,%
< read.DIF,rc.status,rc.settings,rc.options,rc.getOption,%
< promptPackage,promptData,personList,person,packageStatus,%
< packageDescription,package.skeleton,package.contents,old.packages,object.size,%
< nsl,normalizePath,news,new.packages,modifyList,%
< mirror2html,memory.size,memory.limit,makeRweaveLatexCodeRunner,make.socket,%
< make.packages.html,lsf.str,ls.str,localeToCharset,loadhistory,%
< limitedLabels,is.relistable,installed.packages,install.packages,history,%
---
> write.csv,vignette,View,url.show,URLencode,%
> URLdecode,upgrade,update.packageStatus,update.packages,unzip,%
> untar,unstack,type.convert,txtProgressBar,toLatex,%
> toBibtex,timestamp,tar,tail.matrix,tail,%
> SweaveSyntConv,SweaveSyntaxNoweb,SweaveSyntaxLatex,SweaveHooks,Sweave,%
> summaryRprof,strOptions,str,Stangle,stack,%
> setTxtProgressBar,setRepositories,setBreakpoint,sessionInfo,select.list,%
> savehistory,RweaveTryStop,RweaveLatexWritedoc,RweaveLatexSetup,RweaveLatexOptions,%
> RweaveLatexFinish,RweaveLatex,RweaveEvalWithOpt,RweaveChunkPrefix,RtangleWritedoc,%
> RtangleSetup,Rtangle,rtags,RSiteSearch,RShowDoc,%
> Rprofmem,Rprof,remove.packages,relist,recover,%
> read.table,read.socket,read.fwf,read.fortran,read.DIF,%
> read.delim2,read.delim,read.csv2,read.csv,readCitationFile,%
> rc.status,rc.settings,rc.options,rc.getOption,promptPackage,%
> promptData,personList,person,packageStatus,package.skeleton,%
> packageDescription,package.contents,old.packages,object.size,nsl,%
> normalizePath,news,new.packages,modifyList,mirror2html,%
> memory.size,memory.limit,make.socket,makeRweaveLatexCodeRunner,make.packages.html,%
> ls.str,lsf.str,localeToCharset,loadhistory,limitedLabels,%
> is.relistable,install.packages,installed.packages,index.search,history,%
559,568c561,566
< count.fields,contrib.url,compareVersion,combn,close.socket,%
< citation,citHeader,citFooter,citEntry,chooseCRANmirror,%
< checkCRAN,capture.output,bug.report,browseVignettes,browseURL,%
< browseEnv,available.packages,assignInNamespace,aspell,as.roman,%
< as.relistable,as.personList,as.person,argsAnywhere,alarm,%
< View,URLencode,URLdecode,SweaveSyntaxNoweb,SweaveSyntaxLatex,%
< SweaveSyntConv,SweaveHooks,Sweave,Stangle,RweaveTryStop,%
< RweaveLatexWritedoc,RweaveLatexSetup,RweaveLatexOptions,RweaveLatexFinish,RweaveLatex,%
< RweaveEvalWithOpt,RweaveChunkPrefix,RtangleWritedoc,RtangleSetup,Rtangle,%
< Rprofmem,Rprof,RSiteSearch,RShowDoc,CRAN.packages%
---
> CRAN.packages,count.fields,contrib.url,compareVersion,combn,%
> close.socket,citHeader,citFooter,citEntry,citation,%
> chooseCRANmirror,checkCRAN,capture.output,bug.report,browseVignettes,%
> browseURL,browseEnv,available.packages,assignInNamespace,as.roman,%
> as.relistable,as.personList,as.person,aspell,argsAnywhere,%
> alarm%
575,595c573,593
< morekeywords={[8]women,warpbreaks,volcano,uspop,trees,%
< treering,swiss,sunspots,sunspot.year,sunspot.month,%
< state.x77,state.region,state.name,state.division,state.center,%
< state.area,state.abb,stackloss,stack.x,stack.loss,%
< sleep,rock,rivers,randu,quakes,%
< pressure,presidents,precip,occupationalStatus,nottem,%
< nhtemp,mtcars,morley,mdeaths,lynx,%
< longley,lh,ldeaths,islands,iris3,%
< iris,infert,freeny.y,freeny.x,freeny,%
< fdeaths,faithful,eurodist,euro.cross,euro,%
< esoph,discoveries,crimtab,co2,chickwts,%
< cars,beaver2,beaver1,austres,attitude,%
< attenu,anscombe,airquality,airmiles,ability.cov,%
< WorldPhones,WWWusage,VADeaths,USPersonalExpenditure,USJudgeRatings,%
< USArrests,USAccDeaths,UKgas,UKDriverDeaths,UCBAdmissions,%
< ToothGrowth,Titanic,Theoph,Seatbelts,Puromycin,%
< PlantGrowth,OrchardSprays,Orange,Nile,Loblolly,%
< LifeCycleSavings,LakeHuron,JohnsonJohnson,InsectSprays,Indometh,%
< Harman74.cor,Harman23.cor,HairEyeColor,Formaldehyde,EuStockMarkets,%
< DNase,ChickWeight,CO2,BOD,BJsales.lead,%
< BJsales,AirPassengers%
---
> morekeywords={[8]WWWusage,WorldPhones,women,warpbreaks,volcano,%
> VADeaths,uspop,USPersonalExpenditure,USJudgeRatings,USArrests,%
> USAccDeaths,UKgas,UKDriverDeaths,UCBAdmissions,trees,%
> treering,ToothGrowth,Titanic,Theoph,swiss,%
> sunspot.year,sunspots,sunspot.month,state.x77,state.region,%
> state.name,state.division,state.center,state.area,state.abb,%
> stack.x,stackloss,stack.loss,sleep,Seatbelts,%
> rock,rivers,randu,quakes,Puromycin,%
> pressure,presidents,precip,PlantGrowth,OrchardSprays,%
> Orange,occupationalStatus,nottem,Nile,nhtemp,%
> mtcars,morley,mdeaths,lynx,longley,%
> Loblolly,LifeCycleSavings,lh,ldeaths,LakeHuron,%
> JohnsonJohnson,islands,iris3,iris,InsectSprays,%
> infert,Indometh,Harman74.cor,Harman23.cor,HairEyeColor,%
> freeny.y,freeny.x,freeny,Formaldehyde,fdeaths,%
> faithful,EuStockMarkets,eurodist,euro.cross,euro,%
> esoph,DNase,discoveries,crimtab,CO2,%
> co2,chickwts,ChickWeight,cars,BOD,%
> BJsales.lead,BJsales,beaver2,beaver1,austres,%
> attitude,attenu,anscombe,airquality,AirPassengers,%
> airmiles,ability.cov%
604,640c602,638
< substituteFunctionArgs,substituteDirect,slotsFromS3,slotNames,slot<-,%
< slot,signature,sigToEnv,showMlist,showMethods,%
< showExtends,showDefault,showClass,setValidity,setReplaceMethod,%
< setPrimitiveMethods,setPackageName,setOldClass,setMethod,setIs,%
< setGroupGeneric,setGenericImplicit,setGeneric,setDataPart,setClassUnion,%
< setClass,setAs,sessionData,selectSuperClasses,selectMethod,%
< seemsS4Object,sealClass,resetGeneric,resetClass,requireMethods,%
< representation,removeMethodsObject,removeMethods,removeMethod,removeGeneric,%
< removeClass,rematchDefinition,registerImplicitGenerics,reconcilePropertiesAndPrototype,rbind2,%
< prototype,promptMethods,promptClass,prohibitGeneric,possibleExtends,%
< packageSlot<-,packageSlot,newEmptyObject,newClassRepresentation,newBasic,%
< mlistMetaName,missingArg,methodsPackageMetaName,methodSignatureMatrix,method.skeleton,%
< metaNameUndo,mergeMethods,matchSignature,makeStandardGeneric,makePrototypeFromClassDef,%
< makeMethodsList,makeGeneric,makeExtends,makeClassRepresentation,loadMethod,%
< listFromMlist,listFromMethods,linearizeMlist,languageEl<-,languageEl,%
< isXS3Class,isVirtualClass,isSealedMethod,isSealedClass,isGroup,%
< isGrammarSymbol,isGeneric,isClassUnion,isClassDef,isClass,%
< insertMethod,initialize,inheritedSlotNames,implicitGeneric,hasMethods,%
< hasMethod,hasArg,getVirtual,getValidity,getSubclasses,%
< getSlots,getPrototype,getProperties,getPackageName,getMethodsMetaData,%
< getMethodsForDispatch,getMethods,getMethod,getGroupMembers,getGroup,%
< getGenerics,getGeneric,getFunction,getExtends,getDataPart,%
< getClasses,getClassPackage,getClassName,getClassDef,getClass,%
< getAllSuperClasses,getAllMethods,getAccess,generic.skeleton,functionBody<-,%
< functionBody,formalArgs,fixPre1.8,findUnique,findMethods,%
< findMethodSignatures,findMethod,findFunction,findClass,finalDefaultMethod,%
< extends,existsMethod,existsFunction,emptyMethodsList,empty.dump,%
< elNamed<-,elNamed,el<-,el,dumpMethods,%
< dumpMethod,doPrimitiveMethod,defaultPrototype,defaultDumpName,conformMethod,%
< completeSubclasses,completeExtends,completeClassDefinition,coerce<-,coerce,%
< classesToAM,classMetaName,checkSlotAssignment,cbind2,canCoerce,%
< callNextMethod,callGeneric,cacheMethod,cacheMetaData,cacheGenericsMetaData,%
< body<-,balanceMethodsList,assignMethodsMetaData,assignClassDef,asMethodDefinition,%
< as<-,allNames,allGenerics,addNextMethod,Summary,%
< SignatureMethod,S3Part<-,S3Part,S3Class<-,S3Class,%
< Quote,MethodsListSelect,MethodsList,MethodAddCoerce,Math2,%
< Logic,Complex,Compare,Arith%
---
> Summary,substituteFunctionArgs,substituteDirect,slotsFromS3,slotNames,%
> slot<-,slot,sigToEnv,SignatureMethod,signature,%
> showMlist,showMethods,showExtends,showDefault,showClass,%
> setValidity,setReplaceMethod,setPrimitiveMethods,setPackageName,setOldClass,%
> setMethod,setIs,setGroupGeneric,setGenericImplicit,setGeneric,%
> setDataPart,setClassUnion,setClass,setAs,sessionData,%
> selectSuperClasses,selectMethod,seemsS4Object,sealClass,S3Part<-,%
> S3Part,S3Class<-,S3Class,resetGeneric,resetClass,%
> requireMethods,representation,removeMethodsObject,removeMethods,removeMethod,%
> removeGeneric,removeClass,rematchDefinition,registerImplicitGenerics,reconcilePropertiesAndPrototype,%
> rbind2,Quote,prototype,promptMethods,promptClass,%
> prohibitGeneric,possibleExtends,packageSlot<-,packageSlot,newEmptyObject,%
> newClassRepresentation,newBasic,mlistMetaName,missingArg,methodsPackageMetaName,%
> MethodsListSelect,MethodsList,method.skeleton,methodSignatureMatrix,MethodAddCoerce,%
> metaNameUndo,mergeMethods,Math2,matchSignature,makeStandardGeneric,%
> makePrototypeFromClassDef,makeMethodsList,makeGeneric,makeExtends,makeClassRepresentation,%
> Logic,loadMethod,listFromMlist,listFromMethods,linearizeMlist,%
> languageEl<-,languageEl,isXS3Class,isVirtualClass,isSealedMethod,%
> isSealedClass,isGroup,isGrammarSymbol,isGeneric,isClassUnion,%
> isClassDef,isClass,insertMethod,initialize,inheritedSlotNames,%
> implicitGeneric,hasMethods,hasMethod,hasArg,getVirtual,%
> getValidity,getSubclasses,getSlots,getPrototype,getProperties,%
> getPackageName,getMethodsMetaData,getMethodsForDispatch,getMethods,getMethod,%
> getGroupMembers,getGroup,getGenerics,getGeneric,getFunction,%
> getExtends,getDataPart,getClassPackage,getClassName,getClasses,%
> getClassDef,getClass,getAllSuperClasses,getAllMethods,getAccess,%
> generic.skeleton,functionBody<-,functionBody,formalArgs,fixPre1.8,%
> findUnique,findMethodSignatures,findMethods,findMethod,findFunction,%
> findClass,finalDefaultMethod,extends,existsMethod,existsFunction,%
> emptyMethodsList,empty.dump,elNamed<-,elNamed,el<-,%
> el,dumpMethods,dumpMethod,doPrimitiveMethod,defaultPrototype,%
> defaultDumpName,conformMethod,Complex,completeSubclasses,completeExtends,%
> completeClassDefinition,Compare,coerce<-,coerce,classMetaName,%
> classesToAM,checkSlotAssignment,cbind2,canCoerce,callNextMethod,%
> callGeneric,cacheMethod,cacheMetaData,cacheGenericsMetaData,body<-,%
> balanceMethodsList,assignMethodsMetaData,assignClassDef,asMethodDefinition,as<-,%
> Arith,allNames,allGenerics,addNextMethod%
647,652c645,650
< morekeywords={[10]xzfile,xtfrm.numeric_version,xtfrm.factor,xtfrm.default,xtfrm.Surv,%
< xtfrm.POSIXlt,xtfrm.POSIXct,xtfrm.Date,xtfrm,xpdrows.data.frame,%
< writeLines,writeChar,writeBin,write.table0,write.dcf,%
< within.list,within.data.frame,within,withVisible,withRestarts,%
< withCallingHandlers,with.default,with,which.min,which.max,%
< weekdays.POSIXt,weekdays.Date,weekdays,version,vapply,%
---
> morekeywords={[10]xzfile,xtfrm.Surv,xtfrm.POSIXlt,xtfrm.POSIXct,xtfrm.numeric_version,%
> xtfrm.factor,xtfrm.default,xtfrm.Date,xtfrm,xpdrows.data.frame,%
> write.table0,writeLines,write.dcf,writeChar,writeBin,%
> withVisible,withRestarts,within.list,within.data.frame,within,%
> with.default,withCallingHandlers,with,which.min,which.max,%
> weekdays.POSIXt,weekdays.Date,weekdays,version,Vectorize,%
654,699c652,704
< unserialize,unlockBinding,unloadNamespace,unix.time,units<-.difftime,%
< units<-,units.difftime,units,unique.numeric_version,unique.matrix,%
< unique.default,unique.data.frame,unique.array,unique.POSIXlt,tryCatch,%
< truncate.connection,truncate,trunc.POSIXt,trunc.Date,transform.default,%
< transform.data.frame,tracingState,tracemem,toupper,topenv,%
< tolower,toString.default,toString,textConnectionValue,textConnection,%
< testPlatformEquivalence,tempdir,tcrossprod,taskCallbackManager,t.default,%
< t.data.frame,system.time,system.file,sys.status,sys.source,%
< sys.save.image,sys.parents,sys.parent,sys.on.exit,sys.nframe,%
< sys.load.image,sys.function,sys.frames,sys.frame,sys.calls,%
< sys.call,symbol.For,symbol.C,suppressWarnings,suppressPackageStartupMessages,%
< suppressMessages,summary.table,summary.matrix,summary.factor,summary.default,%
< summary.data.frame,summary.connection,summary.POSIXlt,summary.POSIXct,summary.Date,%
< substring<-,substr<-,subset.matrix,subset.default,subset.data.frame,%
< strwrap,strtrim,strptime,strftime,storage.mode<-,%
< storage.mode,stopifnot,stdout,stdin,stderr,%
< standardGeneric,srcref,srcfilecopy,srcfile,sprintf,%
< split<-.default,split<-.data.frame,split<-,split.default,split.data.frame,%
< split.POSIXct,split.Date,source.url,sort.list,sort.int,%
< sort.default,sort.POSIXlt,solve.qr,solve.default,socketSelect,%
< socketConnection,slice.index,sink.number,simpleWarning,simpleMessage,%
< simpleError,simpleCondition,signalCondition,showConnections,shQuote,%
< setTimeLimit,setSessionTimeLimit,setNamespaceInfo,setHook,setCConverterStatus,%
< set.seed,serialize,seq_len,seq_along,seq.int,%
< seq.default,seq.POSIXt,seq.Date,seek.connection,seek,%
< scan.url,scale.default,save.image,sample.int,sQuote,%
< rowsum.default,rowsum.data.frame,rownames<-,rowSums,rowMeans,%
< row.names<-.default,row.names<-.data.frame,row.names<-,row.names.default,row.names.data.frame,%
< row.names,round.POSIXt,round.Date,rev.default,retracemem,%
< restartFormals,restartDescription,replicate,rep.numeric_version,rep.int,%
< rep.factor,rep.POSIXlt,rep.POSIXct,rep.Date,removeTaskCallback,%
< removeCConverter,registerS3methods,registerS3method,reg.finalizer,readLines,%
< readChar,readBin,read.table.url,read.dcf,rcond,%
< rbind.data.frame,rawToChar,rawToBits,rawShift,rawConnectionValue,%
< rawConnection,raw,rapply,range.default,quarters.POSIXt,%
< quarters.Date,quarters,qr.solve,qr.resid,qr.qy,%
< qr.qty,qr.fitted,qr.default,qr.coef,qr.X,%
< qr.R,qr.Q,pushBackLength,pushBack,psigamma,%
< prop.table,proc.time,printNoClass,print.warnings,print.table,%
< print.summary.table,print.srcref,print.srcfile,print.simple.list,print.rle,%
< print.restart,print.proc_time,print.packageInfo,print.octmode,print.numeric_version,%
< print.noquote,print.listof,print.libraryIQR,print.hexmode,print.function,%
< print.factor,print.difftime,print.default,print.data.frame,print.connection,%
< print.condition,print.by,print.POSIXlt,print.POSIXct,print.NativeRoutineList,%
< print.Date,print.DLLRegisteredRoutines,print.DLLInfoList,print.DLLInfo,print.AsIs,%
< prettyNum,pos.to.env,pmin.int,pmax.int,pipe,%
---
> unserialize,unlockBinding,unloadNamespace,unix.time,units.difftime,%
> units<-.difftime,units<-,units,unique.POSIXlt,unique.numeric_version,%
> unique.matrix,unique.default,unique.data.frame,unique.array,tryCatch,%
> trunc.POSIXt,trunc.Date,truncate.connection,truncate,transform.default,%
> transform.data.frame,tracingState,tracemem,toupper,toString.default,%
> toString,topenv,tolower,textConnectionValue,textConnection,%
> testPlatformEquivalence,tempdir,t.default,t.data.frame,tcrossprod,%
> taskCallbackManager,T,Sys.which,Sys.unsetenv,Sys.umask,%
> Sys.timezone,Sys.time,system.time,system.file,sys.status,%
> sys.source,Sys.sleep,Sys.setlocale,Sys.setenv,sys.save.image,%
> Sys.readlink,Sys.putenv,sys.parents,sys.parent,sys.on.exit,%
> sys.nframe,Sys.localeconv,sys.load.image,Sys.info,Sys.glob,%
> Sys.getpid,Sys.getlocale,Sys.getenv,sys.function,sys.frames,%
> sys.frame,Sys.Date,Sys.chmod,sys.calls,sys.call,%
> symbol.For,symbol.C,suppressWarnings,suppressPackageStartupMessages,suppressMessages,%
> summary.table,Summary.POSIXlt,summary.POSIXlt,Summary.POSIXct,summary.POSIXct,%
> Summary.numeric_version,summary.matrix,Summary.factor,summary.factor,Summary.difftime,%
> summary.default,Summary.Date,summary.Date,Summary.data.frame,summary.data.frame,%
> summary.connection,substring<-,substr<-,subset.matrix,subset.default,%
> subset.data.frame,strwrap,strtrim,strptime,strftime,%
> storage.mode<-,storage.mode,stopifnot,stdout,stdin,%
> stderr,standardGeneric,srcref,srcfilecopy,srcfile,%
> sQuote,sprintf,split.POSIXct,split.default,split<-.default,%
> split.Date,split.data.frame,split<-.data.frame,split<-,source.url,%
> sort.POSIXlt,sort.list,sort.int,sort.default,solve.qr,%
> solve.default,socketSelect,socketConnection,slice.index,sink.number,%
> simpleWarning,simpleMessage,simpleError,simpleCondition,signalCondition,%
> shQuote,showConnections,setTimeLimit,setSessionTimeLimit,set.seed,%
> setNamespaceInfo,setHook,setCConverterStatus,serialize,seq.POSIXt,%
> seq_len,seq.int,seq.default,seq.Date,seq_along,%
> seek.connection,seek,scan.url,scale.default,saveNamespaceImage,%
> save.image,sample.int,R.version.string,R.Version,R.version,%
> R_system_version,rowSums,rowsum.default,rowsum.data.frame,row.names.default,%
> row.names<-.default,row.names.data.frame,row.names<-.data.frame,rownames<-,row.names<-,%
> row.names,rowMeans,round.POSIXt,round.Date,RNGversion,%
> R.home,rev.default,retracemem,restartFormals,restartDescription,%
> rep.POSIXlt,rep.POSIXct,rep.numeric_version,replicate,rep.int,%
> rep.factor,rep.Date,removeTaskCallback,removeCConverter,registerS3methods,%
> registerS3method,reg.finalizer,Reduce,read.table.url,readLines,%
> read.dcf,readChar,readBin,rcond,rbind.data.frame,%
> rawToChar,rawToBits,rawShift,rawConnectionValue,rawConnection,%
> raw,rapply,range.default,quarters.POSIXt,quarters.Date,%
> quarters,qr.X,qr.solve,qr.resid,qr.R,%
> qr.qy,qr.qty,qr.Q,qr.fitted,qr.default,%
> qr.coef,pushBackLength,pushBack,psigamma,prop.table,%
> proc.time,print.warnings,print.table,print.summary.table,print.srcref,%
> print.srcfile,print.simple.list,print.rle,print.restart,print.proc_time,%
> print.POSIXlt,print.POSIXct,print.packageInfo,print.octmode,print.numeric_version,%
> print.noquote,printNoClass,print.NativeRoutineList,print.listof,print.libraryIQR,%
> print.hexmode,print.function,print.factor,print.DLLRegisteredRoutines,print.DLLInfoList,%
> print.DLLInfo,print.difftime,print.default,print.Date,print.data.frame,%
> print.connection,print.condition,print.by,print.AsIs,prettyNum,%
> pos.to.env,Position,pmin.int,pmax.int,pipe,%
701,721c706,729
< parent.env<-,parent.env,package_version,packageStartupMessage,packageHasNamespace,%
< packageEvent,package.description,packBits,open.srcfilecopy,open.srcfile,%
< open.connection,open,on.exit,oldClass<-,oldClass,%
< nzchar,numeric_version,ngettext,new.env,namespaceImportMethods,%
< namespaceImportFrom,namespaceImportClasses,namespaceImport,namespaceExport,names<-,%
< mostattributes<-,months.POSIXt,months.Date,months,month.name,%
< month.abb,mode<-,mget,message,merge.default,%
< merge.data.frame,memory.profile,memDecompress,memCompress,mem.limits,%
< mean.difftime,mean.default,mean.data.frame,mean.POSIXlt,mean.POSIXct,%
< mean.Date,max.col,match.fun,match.call,match.arg,%
< mat.or.vec,margin.table,mapply,manglePackageName,makeActiveBinding,%
< make.unique,make.names,lower.tri,logb,lockEnvironment,%
< lockBinding,loadingNamespaceInfo,loadedNamespaces,loadURL,loadNamespace,%
< list.files,library.dynam.unload,library.dynam,lfactorial,levels<-.factor,%
< levels<-,levels.default,letters,length<-.factor,length<-,%
< lazyLoadDBfetch,lazyLoad,labels.default,l10n_info,kappa.tri,%
< kappa.qr,kappa.lm,kappa.default,julian.POSIXt,julian.Date,%
< julian,isdebugged,isTRUE,isSymmetric.matrix,isSymmetric,%
< isSeekable,isS4,isRestart,isOpen,isNamespace,%
< isIncomplete,isBaseNamespace,is.vector,is.unsorted,is.table,%
< is.symbol,is.single,is.recursive,is.real,is.raw,%
---
> parent.env<-,parent.env,packBits,package_version,packageStartupMessage,%
> packageHasNamespace,packageEvent,package.description,Ops.POSIXt,Ops.ordered,%
> Ops.numeric_version,Ops.factor,Ops.difftime,Ops.Date,Ops.data.frame,%
> open.srcfilecopy,open.srcfile,open.connection,open,on.exit,%
> oldClass<-,oldClass,nzchar,numeric_version,ngettext,%
> new.env,Negate,namespaceImportMethods,namespaceImportFrom,namespaceImportClasses,%
> namespaceImport,namespaceExport,names<-,mostattributes<-,months.POSIXt,%
> months.Date,months,month.name,month.abb,mode<-,%
> mget,message,merge.default,merge.data.frame,memory.profile,%
> mem.limits,memDecompress,memCompress,mean.POSIXlt,mean.POSIXct,%
> mean.difftime,mean.default,mean.Date,mean.data.frame,max.col,%
> mat.or.vec,Math.POSIXt,Math.factor,Math.difftime,Math.Date,%
> Math.data.frame,match.fun,match.call,match.arg,margin.table,%
> mapply,Map,manglePackageName,make.unique,make.names,%
> makeActiveBinding,lower.tri,logb,lockEnvironment,lockBinding,%
> loadURL,loadNamespace,loadingNamespaceInfo,loadedNamespaces,list.files,%
> library.dynam.unload,library.dynam,lfactorial,levels<-.factor,levels.default,%
> levels<-,LETTERS,letters,length<-.factor,length<-,%
> lazyLoadDBfetch,lazyLoad,La.svd,La.eigen,La.chol2inv,%
> La.chol,labels.default,l10n_info,kappa.tri,kappa.qr,%
> kappa.lm,kappa.default,julian.POSIXt,julian.Date,julian,%
> is.vector,is.unsorted,isTRUE,is.table,isSymmetric.matrix,%
> isSymmetric,is.symbol,is.single,isSeekable,isS4,%
> isRestart,is.recursive,is.real,is.raw,is.R,%
723,783c731,786
< is.object,is.numeric_version,is.numeric.POSIXt,is.numeric.Date,is.numeric,%
< is.null,is.nan,is.name,is.na<-.factor,is.na<-.default,%
< is.na<-,is.na.numeric_version,is.na.data.frame,is.na.POSIXlt,is.na,%
< is.matrix,is.logical,is.loaded,is.list,is.language,%
< is.integer,is.infinite,is.function,is.finite,is.factor,%
< is.expression,is.environment,is.element,is.double,is.data.frame,%
< is.complex,is.character,is.call,is.atomic,is.array,%
< is.R,invokeRestartInteractively,invokeRestart,inverse.rle,intToUtf8,%
< intToBits,importIntoEnv,identity,identical,icuSetCollate,%
< iconvlist,iconv,gzfile,gzcon,grepl,%
< gregexpr,gettextf,gettext,getTaskCallbackNames,getSrcLines,%
< getRversion,getNumCConverters,getNativeSymbolInfo,getNamespaceVersion,getNamespaceUsers,%
< getNamespaceName,getNamespaceInfo,getNamespaceImports,getNamespaceExports,getNamespace,%
< getLoadedDLLs,getHook,getExportedValue,getDLLRegisteredRoutines.character,getDLLRegisteredRoutines.DLLInfo,%
< getDLLRegisteredRoutines,getConnection,getCallingDLLe,getCallingDLL,getCConverterStatus,%
< getCConverterDescriptions,getAllConnections,gc.time,formatDL,format.pval,%
< format.octmode,format.info,format.hexmode,format.factor,format.difftime,%
< format.default,format.data.frame,format.char,format.POSIXlt,format.POSIXct,%
< format.Date,format.AsIs,formals<-,force,flush.connection,%
< flush,findRestart,findPackageEnv,findInterval,file.symlink,%
< file.show,file.rename,file.remove,file.path,file.info,%
< file.exists,file.create,file.copy,file.choose,file.append,%
< file.access,fifo,factorial,expm1,expand.grid,%
< eval.parent,environmentName,environmentIsLocked,environment<-,env.profile,%
< encodeString,emptyenv,eapply,dyn.unload,dyn.load,%
< duplicated.numeric_version,duplicated.matrix,duplicated.default,duplicated.data.frame,duplicated.array,%
< duplicated.POSIXlt,do.call,dir.create,dimnames<-.data.frame,dimnames<-,%
< dimnames.data.frame,dim<-,dim.data.frame,difftime,diff.default,%
< diff.POSIXt,diff.Date,diag<-,determinant.matrix,determinant,%
< det,delayedAssign,default.stringsAsFactors,debugonce,data.matrix,%
< data.frame,data.class,dQuote,cut.default,cut.POSIXt,%
< cut.Date,contributors,conditionMessage.condition,conditionMessage,conditionCall.condition,%
< conditionCall,computeRestarts,comment<-,colnames<-,colSums,%
< colMeans,codes<-,codes.ordered,codes.factor,closeAllConnections,%
< close.srcfile,close.connection,class<-,chol.default,check_tzones,%
< chartr,charToRaw,char.expand,cbind.data.frame,casefold,%
< capabilities,callCC,c.numeric_version,c.noquote,c.POSIXlt,%
< c.POSIXct,c.Date,bzfile,by.default,by.data.frame,%
< browserText,browserSetDebug,browserCondition,bquote,body<-,%
< bindtextdomain,bindingIsLocked,bindingIsActive,baseenv,attributes<-,%
< attr<-,attr.all.equal,attachNamespace,assign,asS4,%
< asNamespace,as.vector.factor,as.vector,as.table.default,as.table,%
< as.symbol,as.single.default,as.single,as.real,as.raw,%
< as.qr,as.pairlist,as.package_version,as.ordered,as.octmode,%
< as.numeric_version,as.numeric,as.null.default,as.null,as.name,%
< as.matrix.noquote,as.matrix.default,as.matrix.data.frame,as.matrix.POSIXlt,as.matrix,%
< as.logical,as.list.numeric_version,as.list.function,as.list.factor,as.list.environment,%
< as.list.default,as.list.data.frame,as.list,as.integer,as.hexmode,%
< as.function.default,as.function,as.factor,as.expression.default,as.expression,%
< as.environment,as.double.difftime,as.double.POSIXlt,as.double,as.difftime,%
< as.data.frame.vector,as.data.frame.ts,as.data.frame.table,as.data.frame.raw,as.data.frame.ordered,%
< as.data.frame.numeric_version,as.data.frame.numeric,as.data.frame.model.matrix,as.data.frame.matrix,as.data.frame.logical,%
< as.data.frame.list,as.data.frame.integer,as.data.frame.factor,as.data.frame.difftime,as.data.frame.default,%
< as.data.frame.data.frame,as.data.frame.complex,as.data.frame.character,as.data.frame.array,as.data.frame.POSIXlt,%
< as.data.frame.POSIXct,as.data.frame.Date,as.data.frame.AsIs,as.data.frame,as.complex,%
< as.character.srcref,as.character.octmode,as.character.numeric_version,as.character.hexmode,as.character.factor,%
< as.character.error,as.character.default,as.character.condition,as.character.POSIXt,as.character.Date,%
< as.character,as.call,as.array.default,as.array,as.POSIXlt.numeric,%
< as.POSIXlt.factor,as.POSIXlt.default,as.POSIXlt.dates,as.POSIXlt.date,as.POSIXlt.character,%
< as.POSIXlt.POSIXct,as.POSIXlt.Date,as.POSIXlt,as.POSIXct.numeric,as.POSIXct.default,%
< as.POSIXct.dates,as.POSIXct.date,as.POSIXct.POSIXlt,as.POSIXct.Date,as.POSIXct,%
---
> isOpen,ISOdatetime,ISOdate,is.object,is.numeric_version,%
> is.numeric.POSIXt,is.numeric.Date,is.numeric,is.null,is.na.POSIXlt,%
> is.na.numeric_version,is.nan,isNamespace,is.name,is.na<-.factor,%
> is.na<-.default,is.na.data.frame,is.na<-,is.na,is.matrix,%
> is.logical,is.loaded,is.list,is.language,is.integer,%
> is.infinite,isIncomplete,is.function,is.finite,is.factor,%
> is.expression,is.environment,is.element,is.double,isdebugged,%
> is.data.frame,is.complex,is.character,is.call,isBaseNamespace,%
> is.atomic,is.array,invokeRestartInteractively,invokeRestart,inverse.rle,%
> intToUtf8,intToBits,importIntoEnv,identity,identical,%
> icuSetCollate,iconvlist,iconv,gzfile,gzcon,%
> grepl,gregexpr,gettextf,gettext,getTaskCallbackNames,%
> getSrcLines,getRversion,getNumCConverters,getNativeSymbolInfo,getNamespaceVersion,%
> getNamespaceUsers,getNamespaceName,getNamespaceInfo,getNamespaceImports,getNamespaceExports,%
> getNamespace,getLoadedDLLs,getHook,getExportedValue,getDLLRegisteredRoutines.DLLInfo,%
> getDLLRegisteredRoutines.character,getDLLRegisteredRoutines,getConnection,getCConverterStatus,getCConverterDescriptions,%
> getCallingDLLe,getCallingDLL,getAllConnections,gc.time,format.pval,%
> format.POSIXlt,format.POSIXct,format.octmode,format.info,format.hexmode,%
> format.factor,formatDL,format.difftime,format.default,format.Date,%
> format.data.frame,format.char,format.AsIs,formals<-,force,%
> flush.connection,flush,findRestart,findPackageEnv,findInterval,%
> Find,Filter,file.symlink,file.show,file.rename,%
> file.remove,file.path,file.info,file.exists,file.create,%
> file.copy,file.choose,file.append,file.access,fifo,%
> factorial,F,expm1,expand.grid,eval.parent,%
> env.profile,environmentName,environmentIsLocked,environment<-,Encoding<-,%
> Encoding,encodeString,emptyenv,eapply,dyn.unload,%
> dyn.load,duplicated.POSIXlt,duplicated.numeric_version,duplicated.matrix,duplicated.default,%
> duplicated.data.frame,duplicated.array,dQuote,do.call,dir.create,%
> dimnames.data.frame,dimnames<-.data.frame,dimnames<-,dim.data.frame,dim<-,%
> difftime,diff.POSIXt,diff.default,diff.Date,diag<-,%
> determinant.matrix,determinant,det,delayedAssign,default.stringsAsFactors,%
> debugonce,data.matrix,data.frame,data.class,cut.POSIXt,%
> cut.default,cut.Date,Cstack_info,c.POSIXlt,c.POSIXct,%
> contributors,conditionMessage.condition,conditionMessage,conditionCall.condition,conditionCall,%
> computeRestarts,comment<-,colSums,colnames<-,colMeans,%
> codes.ordered,codes.factor,codes<-,c.numeric_version,c.noquote,%
> close.srcfile,close.connection,closeAllConnections,class<-,chol.default,%
> check_tzones,chartr,charToRaw,char.expand,c.Date,%
> cbind.data.frame,casefold,capabilities,callCC,bzfile,%
> by.default,by.data.frame,browserText,browserSetDebug,browserCondition,%
> bquote,body<-,bindtextdomain,bindingIsLocked,bindingIsActive,%
> baseenv,attributes<-,attr.all.equal,attr<-,attachNamespace,%
> as.vector.factor,as.vector,as.table.default,as.table,as.symbol,%
> as.single.default,as.single,assign,asS4,as.real,%
> as.raw,as.qr,as.POSIXlt.POSIXct,as.POSIXlt.numeric,as.POSIXlt.factor,%
> as.POSIXlt.default,as.POSIXlt.dates,as.POSIXlt.Date,as.POSIXlt.date,as.POSIXlt.character,%
> as.POSIXlt,as.POSIXct.POSIXlt,as.POSIXct.numeric,as.POSIXct.default,as.POSIXct.dates,%
> as.POSIXct.Date,as.POSIXct.date,as.POSIXct,as.pairlist,as.package_version,%
> as.ordered,as.octmode,as.numeric_version,as.numeric,as.null.default,%
> as.null,asNamespace,as.name,as.matrix.POSIXlt,as.matrix.noquote,%
> as.matrix.default,as.matrix.data.frame,as.matrix,as.logical,as.list.numeric_version,%
> as.list.function,as.list.factor,as.list.environment,as.list.default,as.list.data.frame,%
> as.list,as.integer,as.hexmode,as.function.default,as.function,%
> as.factor,as.expression.default,as.expression,as.environment,as.double.POSIXlt,%
> as.double.difftime,as.double,as.difftime,as.Date.POSIXlt,as.Date.POSIXct,%
785,802c788,800
< as.Date.character,as.Date.POSIXlt,as.Date.POSIXct,as.Date,anyDuplicated.matrix,%
< anyDuplicated.default,anyDuplicated.data.frame,anyDuplicated.array,anyDuplicated,all.vars,%
< all.names,all.equal.raw,all.equal.numeric,all.equal.list,all.equal.language,%
< all.equal.formula,all.equal.factor,all.equal.default,all.equal.character,all.equal.POSIXct,%
< all.equal,agrep,addTaskCallback,addNA,Vectorize,%
< T,Sys.which,Sys.unsetenv,Sys.umask,Sys.timezone,%
< Sys.time,Sys.sleep,Sys.setlocale,Sys.setenv,Sys.readlink,%
< Sys.putenv,Sys.localeconv,Sys.info,Sys.glob,Sys.getpid,%
< Sys.getlocale,Sys.getenv,Sys.chmod,Sys.Date,Summary.numeric_version,%
< Summary.factor,Summary.difftime,Summary.data.frame,Summary.POSIXlt,Summary.POSIXct,%
< Summary.Date,Reduce,R_system_version,RNGversion,R.version.string,%
< R.version,R.home,R.Version,Position,Ops.ordered,%
< Ops.numeric_version,Ops.factor,Ops.difftime,Ops.data.frame,Ops.POSIXt,%
< Ops.Date,Negate,Math.factor,Math.difftime,Math.data.frame,%
< Math.POSIXt,Math.Date,Map,La.svd,La.eigen,%
< La.chol2inv,La.chol,LETTERS,ISOdatetime,ISOdate,%
< Find,Filter,F,Encoding<-,Encoding,%
< Cstack_info%
---
> as.Date.character,as.Date,as.data.frame.vector,as.data.frame.ts,as.data.frame.table,%
> as.data.frame.raw,as.data.frame.POSIXlt,as.data.frame.POSIXct,as.data.frame.ordered,as.data.frame.numeric_version,%
> as.data.frame.numeric,as.data.frame.model.matrix,as.data.frame.matrix,as.data.frame.logical,as.data.frame.list,%
> as.data.frame.integer,as.data.frame.factor,as.data.frame.difftime,as.data.frame.default,as.data.frame.Date,%
> as.data.frame.data.frame,as.data.frame.complex,as.data.frame.character,as.data.frame.AsIs,as.data.frame.array,%
> as.data.frame,as.complex,as.character.srcref,as.character.POSIXt,as.character.octmode,%
> as.character.numeric_version,as.character.hexmode,as.character.factor,as.character.error,as.character.default,%
> as.character.Date,as.character.condition,as.character,as.call,as.array.default,%
> as.array,anyDuplicated.matrix,anyDuplicated.default,anyDuplicated.data.frame,anyDuplicated.array,%
> anyDuplicated,all.vars,all.names,all.equal.raw,all.equal.POSIXct,%
> all.equal.numeric,all.equal.list,all.equal.language,all.equal.formula,all.equal.factor,%
> all.equal.default,all.equal.character,all.equal,agrep,addTaskCallback,%
> addNA%
932,933c930
< > cleanEx()
< > nameEx("changeKeywordstyles")
---
> > cleanEx(); nameEx("changeKeywordstyles")
952,955c949,954
< ucv,truehist,theta.mm,theta.ml,theta.md,%
< synth.tr,synth.te,survey,studres,stormer,%
< stepAIC,steam,stdres,snails,shuttle,%
< shrimp,shoes,ships,select,sammon,%
---
> VA,UScrime,UScereal,ucv,truehist,%
> Traffic,theta.mm,theta.ml,theta.md,synth.tr,%
> synth.te,survey,studres,stormer,stepAIC,%
> steam,stdres,SP500,snails,Skye,%
> Sitka89,Sitka,shuttle,shrimp,shoes,%
> ships,Shepard,select,sammon,Rubber,%
957,984c956,981
< renumerate.formula,renumerate,rational,quine,qda,%
< psi.huber,psi.hampel,psi.bisquare,polr,phones,%
< petrol,parcoord,painters,oats,npr1,%
< npk,nlschools,newcomb,negexp.SSival,negative.binomial,%
< neg.bin,nclass.freq,mvrnorm,muscle,motors,%
< minn38,michelson,menarche,mcycle,mca,%
< mammals,ltsreg,lqs.formula,lqs,logtrans,%
< loglm1,loglm,lmwork,lmsreg,lm.ridge,%
< lm.gls,leuk,ldahist,lda,kde2d,%
< isoMDS,is.fractions,immer,hubers,huber,%
< housing,hist.scott,hist.FD,hills,glmmPQL,%
< glm.nb,glm.convert,ginv,gilgais,geyser,%
< genotype,gehan,gamma.shape,gamma.dispersion,galaxies,%
< frequency.polygon,fractions,forbes,fitdistr,fgl,%
< fbeta,farms,eqscplot,epil,enlist,%
< eagles,dropterm,drivers,dose.p,denumerate.formula,%
< denumerate,deaths,crabs,cpus,cov.trob,%
< cov.rob,cov.mve,cov.mcd,corresp,coop,%
< contr.sdif,con2tr,chem,cement,cats,%
< caith,cabbages,boxcox,birthwt,biopsy,%
< beav2,beav1,bcv,bandwidth.nrd,bacteria,%
< as.fractions,area,anorexia,addterm,accdeaths,%
< abbey,VA,UScrime,UScereal,Traffic,%
< Skye,Sitka89,Sitka,Shepard,SP500,%
< Rubber,Rabbit,Pima.tr2,Pima.tr,Pima.te,%
< OME,Null,Melanoma,Insurance,GAGurine,%
< DDT,Cushings,Cars93,Boston,Animals,%
< Aids2%
---
> renumerate.formula,renumerate,rational,Rabbit,quine,%
> qda,psi.huber,psi.hampel,psi.bisquare,polr,%
> Pima.tr2,Pima.tr,Pima.te,phones,petrol,%
> parcoord,painters,OME,oats,Null,%
> npr1,npk,nlschools,newcomb,negexp.SSival,%
> neg.bin,negative.binomial,nclass.freq,mvrnorm,muscle,%
> motors,minn38,michelson,menarche,Melanoma,%
> mcycle,mca,mammals,ltsreg,lqs.formula,%
> lqs,logtrans,loglm1,loglm,lmwork,%
> lmsreg,lm.ridge,lm.gls,leuk,ldahist,%
> lda,kde2d,isoMDS,is.fractions,Insurance,%
> immer,hubers,huber,housing,hist.scott,%
> hist.FD,hills,glm.nb,glmmPQL,glm.convert,%
> ginv,gilgais,geyser,genotype,gehan,%
> gamma.shape,gamma.dispersion,galaxies,GAGurine,frequency.polygon,%
> fractions,forbes,fitdistr,fgl,fbeta,%
> farms,eqscplot,epil,enlist,eagles,%
> dropterm,drivers,dose.p,denumerate.formula,denumerate,%
> deaths,DDT,Cushings,crabs,cpus,%
> cov.trob,cov.rob,cov.mve,cov.mcd,corresp,%
> coop,contr.sdif,con2tr,chem,cement,%
> cats,Cars93,caith,cabbages,boxcox,%
> Boston,birthwt,biopsy,beav2,beav1,%
> bcv,bandwidth.nrd,bacteria,as.fractions,area,%
> anorexia,Animals,Aids2,addterm,accdeaths,%
> abbey%
1000,1004c997
< > cleanEx()
<
< detaching 'package:MASS'
<
< > nameEx("copySourceFromRForge")
---
> > cleanEx(); nameEx("copySourceFromRForge")
1326,1327c1319
< > cleanEx()
< > nameEx("isBaseOrRecommended")
---
> > cleanEx(); nameEx("isBaseOrRecommended")
1344,1345c1336
< > cleanEx()
< > nameEx("library")
---
> > cleanEx(); nameEx("library")
1365,1379c1356,1370
< morekeywords={[12]veteran,untangle.specials,tobin,tcut,survregDtest,%
< survreg.fit,survreg.distributions,survreg.control,survreg,survobrien,%
< survfit,survexp.usr,survexp.us,survexp.mnwhite,survexp.mn,%
< survexp,survdiff,survSplit,survConcordance,strata,%
< stanford2,ridge,rats,ratetable,qsurvreg,%
< pyears,psurvreg,pspline,pbcseq,pbc,%
< ovarian,nwtco,mgus2,mgus1,mgus,%
< match.ratetable,lung,leukemia,labels.survreg,kidney,%
< jasa1,jasa,is.ratetable,is.na.ratetable,is.na.coxph.penalty,%
< is.na.Surv,is.Surv,heart,frailty.t,frailty.gaussian,%
< frailty.gamma,frailty,format.Surv,dsurvreg,coxph.fit,%
< coxph.detail,coxph.control,coxph,cox.zph,colon,%
< cluster,clogit,cgd,cch,cancer,%
< bladder2,bladder1,bladder,basehaz,attrassign,%
< aml,aareg,Surv%
---
> morekeywords={[12]veteran,untangle.specials,tobin,tcut,survSplit,%
> survreg.fit,survregDtest,survreg.distributions,survreg.control,survreg,%
> survobrien,survfit,survexp.usr,survexp.us,survexp.mnwhite,%
> survexp.mn,survexp,survdiff,survConcordance,Surv,%
> strata,stanford2,ridge,rats,ratetable,%
> qsurvreg,pyears,psurvreg,pspline,pbcseq,%
> pbc,ovarian,nwtco,mgus2,mgus1,%
> mgus,match.ratetable,lung,leukemia,labels.survreg,%
> kidney,jasa1,jasa,is.Surv,is.ratetable,%
> is.na.Surv,is.na.ratetable,is.na.coxph.penalty,heart,frailty.t,%
> frailty.gaussian,frailty.gamma,frailty,format.Surv,dsurvreg,%
> cox.zph,coxph.fit,coxph.detail,coxph.control,coxph,%
> colon,cluster,clogit,cgd,cch,%
> cancer,bladder2,bladder1,bladder,basehaz,%
> attrassign,aml,aareg%
1398,1402c1389
< > cleanEx()
<
< detaching 'package:survival', 'package:splines'
<
< > nameEx("lstinputSourceFromRForge")
---
> > cleanEx(); nameEx("lstinputSourceFromRForge")
1732,1733c1719
< > cleanEx()
< > nameEx("lstset")
---
> > cleanEx(); nameEx("lstset")
1768,1769c1754
< > cleanEx()
< > nameEx("lstsetLanguage")
---
> > cleanEx(); nameEx("lstsetLanguage")
1781a1767,1768
> Warning: closing unused connection 4 (http://r-forge.r-project.org/plugins/scmsvn/viewcvs.php/*checkout*/pkg/distr/R/BinomialDistribution.R?root=distr)
> Warning: closing unused connection 3 (http://r-forge.r-project.org/plugins/scmsvn/viewcvs.php/*checkout*/pkg/distr/man/Binom-class.Rd?root=distr)
2020,2024c2007
< > cleanEx()
<
< detaching 'package:MASS'
<
< > nameEx("readPackageVersion")
---
> > cleanEx(); nameEx("readPackageVersion")
2042,2043c2025
< > cleanEx()
< > nameEx("readSourceFromRForge")
---
> > cleanEx(); nameEx("readSourceFromRForge")
3228,3229c3210
< > cleanEx()
< > nameEx("setToBeDefinedPkgs")
---
> > cleanEx(); nameEx("setToBeDefinedPkgs")
3254,3255c3235
< > cleanEx()
< > nameEx("taglist")
---
> > cleanEx(); nameEx("taglist")
OK
- checking package vignettes in 'inst/doc' ... WARNING
*** Weave Errors ***
File /data/gannet/tmp/ripley/R/packages/tests-Sun/SweaveListingUtils.Rcheck/inst/doc/ExampleSweaveListingUtils.Rnw :
chunk 9 (label=cleanup)
Error : package ‘SweaveListingUtils’ is required by ‘distr’ so will not be detached
- checking PDF version of manual ... OK