[Rd] Problem with anova and the new abbreviation restrictions

Hadley Wickham h.wickham at gmail.com
Mon Jul 1 23:01:22 CEST 2013

On Mon, Jul 1, 2013 at 3:51 PM, Terry Therneau <therneau at mayo.edu> wrote:
> An unwanted side effect of the new restrictions on abrreviated names.
> The anova.coxph command, in a slavish copy of anova.lm etc, returns a data
> frame with column labels of
>     loglik  Chisq  Df  Pr(>|Chi|)
> If one tries to extract the final column of the table errors result since it
> is not a standard R variable name.
>> afit <- anova(lm(conc ~ uptake, CO2))
>> afit$P
> [1] 2.905607e-06           NA
> Warning message:
> In `$.data.frame`(afit, P) : Name partially matched in data frame

I think it's reasonable to emit a warning in that case, although it
would be more useful to say:

Warning message:
P partially matched to `Pr(>|Chi|)` in data frame


Chief Scientist, RStudio

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