Re: [Rd] R2.0.0 bug in function vcov in library survival (PR#7266)

From: Torsten Hothorn <Torsten.Hothorn_at_rzmail.uni-erlangen.de>
Date: Thu 07 Oct 2004 - 03:22:46 EST

>
> Have just compiled and installed R-2.0.0.tar.gz running SuSE9.0.
>
> The function vcov do not accept "coxph" object as input any longer.
>
> The same R-program running R1.9.1 do work. R-program attached below.
>
> Exporting the coxph object from R2.0.0 to R1.9.1 I get vcov ouput in R1.9.1.
> Exporting the coxph object from R1.9.1 to R2.0.0 I get errors in R2.0.0
>
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> [Previously saved workspace restored]
>
> > rm(list=ls())
> > load("~/R/wlh0301/data/breast.RData")
> > library(survival)
> Loading required package: splines
> > u2<-coxph(Surv(time,event) ~ age + cbmi + smoker + drink , data=breast.1)
> > tmp <- vcov(u2)
> Error in vcov(u2) : no applicable method for "vcov"
> >
> > class(u2)
> [1] "coxph"
>

S3method(vcov, coxph)

is missing from the NAMESPACE file of package `survival', I think. For the meantime you may use

R> survival:::vcov.coxph
function (object, ...)
{

    rval <- object$var
    dimnames(rval) <- list(names(coef(object)), names(coef(object)))     rval
}
<environment: namespace:survival>

Torsten

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R-devel@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel Received on Thu Oct 07 03:36:21 2004

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