------------------------------ On Sat, May 16, 2015 8:04 AM BST Uwe Ligges wrote:
>Not sure why this goes to R-devel. You just could have asked the >maintainer. Terry Therneau is aware of it and promised he will fix it. > The quickest fix is to add cmprsk to the recommended list , and that's is an R-devel issue. >On 16.05.2015 07:22, Hin-Tak Leung wrote: >> 'make check-all' for current R has been showing this error in the middle >> for a few months now - any thought on fixing this? I think cmprsk >> should be either included in the recommended bundle, or >> the survival vignette to not depend on it. Having 'make check-all' showing >> glaring ERROR's for a few months seems to defeat the purpose of >> doing any checking at all via 'make check-all'. >> >> FWIW, I did look at when/how the issue was introduced, but it appeared >> that svn://svn.r-forge.r-project.org/svnroot/survival is no longer being >> updated, and git://github.com/cran/survival.git only shows release jumps. >> Anyway, if first appears with survival 2.38-1 in February, and as the >> previous >> 2.37-7 was 13 months older, this info is of no use to anybody. >> I didn't write earlier as I thought the issue would go away at some point; >> but obviously this isn't the case after 3 months. >> >> ----------------------------------------------- >> ERROR >> Errors in running code in vignettes: >> when running code in ‘compete.Rnw’ >> ... >> temp$fstat <- as.numeric(event) >> >> temp$msex <- with(temp, 1 * (sex == "M")) >> >> fgfit1 <- with(temp, crr(etime, fstat, cov1 = cbind(age, >> + msex, mspike), failcode = 2, cencode = 1, variance = TRUE)) >> >> When sourcing ‘compete.R’: >> Error: could not find function "crr" >> Execution halted >> >> * checking re-building of vignette outputs ... NOTE >> Error in re-building vignettes: >> ... >> Warning in coxph(Surv(futime, death) ~ group:age2 + sex + strata(group), : >> X matrix deemed to be singular; variable 23 24 25 >> Loading required package: cmprsk >> Warning in library(package, lib.loc = lib.loc, character.only = TRUE, >> logical.return = TRUE, : >> there is no package called ‘cmprsk’ >> >> Error: processing vignette 'compete.Rnw' failed with diagnostics: >> chunk 15 (label = finegray) >> Error in eval(expr, envir, enclos) : could not find function "crr" >> Execution halted >> >> ______________________________________________ >> R-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/r-devel >> ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
