* using log directory 'd:/Rcompile/CRANpkg/local/2.8/Hmisc.Rcheck' * using R version 2.8.1 (2008-12-22) * using session charset: ISO8859-1 * checking for file 'Hmisc/DESCRIPTION' ... OK * this is package 'Hmisc' version '3.6-0' * checking package name space information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'Hmisc' can be installed ... OK * checking package directory ... OK * checking for portable file names ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the name space 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 Ecdf.formula: no visible global function definition for 'terms.inner' Ecdf.formula: no visible global function definition for 'setup.2d.trellis' Function.areg.boot: possible error in assign(fun.name[i], g[[i]], frame = frame): unused argument(s) (frame = frame) Function.areg.boot: possible error in assign(fun.name[i], g[[i]], where = where): unused argument(s) (where = where) Function.transcan: possible error in assign(fun.name, f, where = where): unused argument(s) (where = where) [.discrete: no visible global function definition for 'Oldclass' [.transcan: ... may be used in an incorrect context: 'x[..., drop = drop]' [.transcan: ... may be used in an incorrect context: 'list(...)' bootkm: no visible global function definition for 'survfit.km' do: possible error in eval(ex, local = 1): unused argument(s) (local = 1) drawPlot : Points: no visible binding for global variable 'pch.to.use' eip: possible error in assign(name, g, where = f): unused argument(s) (where = f) errbar: no visible global function definition for 'localXAxis' errbar: no visible binding for global variable 'cex.xaxis' errbar: no visible binding for global variable 'col.xaxis' errbar: no visible binding for global variable 'font.xaxis' errbar: no visible global function definition for 'localYAxis' errbar: no visible binding for global variable 'cex.yaxis' errbar: no visible binding for global variable 'col.yaxis' errbar: no visible binding for global variable 'font.yaxis' event.chart : legnd: possible error in legend(..., marks = pch): unused argument(s) (marks = pch) event.chart: no visible global function definition for 'dev.ask' fit.mult.impute: no visible global function definition for 'complete' formatDateTime: no visible global function definition for 'timeDate' histSpike: no visible global function definition for 'oldCut' importConvertDateTime: no visible global function definition for 'timeDate' impute.transcan: possible error in assign(nam, v, where = where.out): unused argument(s) (where = where.out) impute.transcan: possible error in assign(nam, v, frame = frame.out): unused argument(s) (frame = frame.out) inverseFunction: multiple local function definitions for 'h' with different formal arguments km.quick: no visible global function definition for 'survfit.km' largest.empty: no visible global function definition for 'as.interger' latex.summary.formula.cross: no visible binding for global variable 'col.just' latexTranslate: no visible binding for global variable 'alpha' latexTranslate: no visible binding for global variable 'delta' latexTranslate: no visible binding for global variable 'epsilon' latexTranslate: no visible binding for global variable 'varepsilon' latexTranslate: no visible binding for global variable 'zeta' latexTranslate: no visible binding for global variable 'eta' latexTranslate: no visible binding for global variable 'theta' latexTranslate: no visible binding for global variable 'vartheta' latexTranslate: no visible binding for global variable 'iota' latexTranslate: no visible binding for global variable 'lambda' latexTranslate: no visible binding for global variable 'mu' latexTranslate: no visible binding for global variable 'nu' latexTranslate: no visible binding for global variable 'xi' latexTranslate: no visible binding for global variable 'varpi' latexTranslate: no visible binding for global variable 'rho' latexTranslate: no visible binding for global variable 'varrho' latexTranslate: no visible binding for global variable 'sigma' latexTranslate: no visible binding for global variable 'varsigma' latexTranslate: no visible binding for global variable 'tau' latexTranslate: no visible binding for global variable 'upsilon' latexTranslate: no visible binding for global variable 'phi' latexTranslate: no visible binding for global variable 'carphi' latexTranslate: no visible binding for global variable 'chi' latexTranslate: no visible binding for global variable 'psi' latexTranslate: no visible binding for global variable 'omega' latexTranslate: no visible binding for global variable 'Delta' latexTranslate: no visible binding for global variable 'Theta' latexTranslate: no visible binding for global variable 'Lambda' latexTranslate: no visible binding for global variable 'Xi' latexTranslate: no visible binding for global variable 'Pi' latexTranslate: no visible binding for global variable 'Sigma' latexTranslate: no visible binding for global variable 'Upsilon' latexTranslate: no visible binding for global variable 'Phi' latexTranslate: no visible binding for global variable 'Psi' latexTranslate: no visible binding for global variable 'Omega' lookupSASContents: no visible binding for global variable 'NOBS' lookupSASContents: no visible binding for global variable 'memname' lookupSASContents: no visible binding for global variable 'memlabel' matrix2dataFrame: no visible binding for global variable 'origAttributes' na.detail.response: possible error in eval(as.name(GFUN), local = FALSE): unused argument(s) (local = FALSE) nafitted.delete: no visible global function definition for 'naresid.omit' nafitted.delete: no visible global function definition for 'naresid.exclude' naresid.delete: no visible global function definition for 'naresid.omit' numericScale: no visible global function definition for 'axis.time' ordGridFun : : possible error in grid.xaxis(at = at, label = labels, ticks = ticks, gp = gpar(...)): unused argument(s) (ticks = ticks) ordGridFun : : possible error in grid.yaxis(at = at, label = labels, ticks = ticks, gp = gpar(...)): unused argument(s) (ticks = ticks) panel.Dotplot : Key: no visible global function definition for 'key' panel.Dotplot: multiple local function definitions for 'Key' with different formal arguments panel.Ecdf : Key: no visible global function definition for 'key' panel.Ecdf: multiple local function definitions for 'Key' with different formal arguments panel.plsmo : : no visible global function definition for 'key' panel.xYplot : Key: no visible global function definition for 'key' panel.xYplot: multiple local function definitions for 'Key' with different formal arguments plot.rm.boot: no visible global function definition for 'past' plot.summary.formula.response : : no visible global function definition for 'key' plot.summary.formula.reverse : : no visible global function definition for 'key' predict.areg.boot: no visible global function definition for 'nafitted' print.char.list: no visible binding for global variable 'colnames.width' print.char.list: no visible binding for global variable 'rownames.height' print.responseSummary: no visible binding for global variable 'attribs' ps.slide: possible error in unix(paste("ghostview ", file, ".ps &", sep = ""), output = FALSE): unused argument(s) (output = FALSE) ps.slide: possible error in unix(paste("(gs -sDEVICE=pbm -sOutputFile=- -r75 -q - quit.ps < ", file, ".ps | pnmflip -cw | ppmtopcx > ", file, ".pcx) &", sep = ""), output = FALSE): unused argument(s) (output = FALSE) ps.slide: possible error in unix(paste("(gs -sDEVICE=pbmraw -sOutputFile=- -r300 -q - quit.ps < ", file, ".ps | pnmflip -cw | pnmtotiff > ", file, ".tiff) &", sep = ""), output = FALSE): unused argument(s) (output = FALSE) ps.slide: no visible binding for global variable 'ps.colors.rgb' ps.slide: no visible binding for global variable 'ps.fonts' ps.slide: possible error in postscript(paste(file, ".ps", sep = ""), hor = hor, height = height, width = width, pointsize = 0.6 * pointsize * max(width/(30 * 12/72.27), height/(30 * 12/72.27/((1 + sqrt(5))/2))), colors = cols, fonts = fonts, ...): unused argument(s) (colors = cols) ps.slide: possible error in postscript(paste(file, ".ps", sep = ""), hor = hor, colors = cols, fonts = fonts, ...): unused argument(s) (colors = cols) recode: no visible binding for global variable 'numnam' requirePackage: ... may be used in an incorrect context sas.get : : no visible global function definition for 'is.dir' sas.get : file.is.readable: no visible global function definition for 'access' sas.get: possible error in assign(name[i], dsi, where = where): unused argument(s) (where = where) setpdf: no visible global function definition for 'pdf.graph' setps : psfig: possible error in postscript(file = file, horizontal = FALSE, width = width, height = height, pointsize = pointsize, fonts = ps.fonts[fontNumber], font = 1, maximize = TRUE, onefile = onefile, print.it = FALSE): unused argument(s) (font = 1, maximize = TRUE) setps : psfig: possible error in postscript(file = file, horizontal = FALSE, width = width, height = height, pointsize = pointsize, fonts = ps.fonts[fontNumber], font = 1): unused argument(s) (font = 1) spearman2.default: no visible binding for global variable 'mlev' summary.formula: no visible global function definition for 'terms.inner' transcan: no visible global function definition for 'terms.inner' transcan: no visible global function definition for 'tree' transcan: no visible global function definition for 'tree.control' transcan: no visible global function definition for 'rpart' transcan: no visible global function definition for 'rpart.control' uncbind: possible error in assign(paste(prefix, nn[i], suffix, sep = ""), x[, i], where = 1): unused argument(s) (where = 1) varclus: possible error in hclust(sim = x, method = method): unused argument(s) (sim = x) zoom: no visible binding for global variable 'usa' * 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 line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking for portable use of $BLAS_LIBS ... OK * creating Hmisc-Ex.R ... OK * checking examples ... ERROR Running examples in 'Hmisc-Ex.R' failed. The error most likely occurred in: > ### * bootkm > > flush(stderr()); flush(stdout()) > > ### Name: bootkm > ### Title: Bootstrap Kaplan-Meier Estimates > ### Aliases: bootkm > ### Keywords: survival nonparametric > > ### ** Examples > > # Compute 0.95 nonparametric confidence interval for the difference in > # median survival time between females and males (two-sample problem) > set.seed(1) > library(survival) Loading required package: splines Attaching package: 'survival' The following object(s) are masked from package:Hmisc : untangle.specials > S <- Surv(runif(200)) # no censoring > sex <- c(rep('female',100),rep('male',100)) > med.female <- bootkm(S[sex=='female',], B=100) # normally B=500 Error in bootkm(S[sex == "female", ], B = 100) : could not find function "survfit.km" Execution halted