Re: [Rd] Mysterious behavior

From: Duncan Murdoch <murdoch.duncan_at_gmail.com>
Date: Fri, 09 Jul 2010 11:22:48 -0400

On 09/07/2010 10:55 AM, Therneau, Terry M., Ph.D. wrote:
> I had trouble with some tests for the survival suite last night that I
> cannot explain.
>
> Framework: Ubuntu Linux, R2.11.
> For testing survival I have a separate directory and Makefile. I
> pull everything into the local .RData, no packages, library, or
> namespace. (It's easier to add test modifications to a routine in a
> chain of calls).
>
> A test of survreg + psline would fail because splines is not
> automatically loaded in this scenario. In my console window type
> > library(splines)
> > fit <- survreg(Surv(time, status) ~ ph.ecog + spline(age),
> data=lung)
> as the first 2 lines a a new session (the lung data is also saved)
> and up would pop an error message about having <2.10 version of
> survival. And it is true that I had such a thing in my ~/RLib. But
> there is no mention of either the local or the system survival library
> when I type search(), and .Autoloaded is NULL.
>
Could you show us the result of .libPaths(), search(), searchpaths() and sessionInfo()?

Duncan Murdoch

> I'm mystified as to how R decided to use that library, and what it was
> trying to pull from it. I removed it from ~/Rlib and the message went
> away, but now I'm not so sure that this was a good idea. Is something
> now being automatically snatched out of the standard survival library?
> If so that compromises the integrity of my testbed. How do I find out?
>
> Terry Therneau
>
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>



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