[R] R 2.6 and library(survival)

[Prof Brian Ripley]

On Sun, 25 Nov 2007, Prof Brian Ripley wrote:

> There is a reproducible example in the MASS survival chapter.  I've
> reported this to the survival maintainer more than once: it's a partial
> matching problem.

Some diging shows that this was fixed in survival 2.34 (but not in the SVN 
for survival!), after 2.6.0, so it would be worth updating to R 2.6.1 
(which contains that version).

> On Sat, 24 Nov 2007, Ben Bolker wrote:
>
>>
>>
>>
>> makis motakis-2 wrote:
>>>
>>> Hi all,
>>>
>>> I have installed in R 2.6 the survival package and I am trying to analyze
>>> some
>>> data and present plots. The problem occurs when I try to plot lines on
>>> the same plot. E.g. take simulated data for time (t), event (e) and groups
>>> (group1 and group2) and do:
>>>
>>> ### this is how I create the plots
>>> plot1<-survfit(Surv(t,e)~ as.factor(group1))
>>> plot2<-survfit(Surv(t,e)~ as.factor(group2))
>>>
>>> plot(plot1)
>>> lines(plot2,type="s")
>>>    Error in rep(2, n2 - 1) : invalid 'times' argument
>>>
>>> The plot is created (plot1) but the lines (plot2) are not. I have run this
>>> same program
>>> several times from my previous pc (R 2.4 was installed)and I never had
>>> such a problem.
>>> Now suddenly this error message appears and it concerns only the survival
>>> package (I mean
>>> for simple plots there is no problem to plot lines in an existing plot).
>>> Is there a problem
>>> with R 2.6 on this matter? Can someone please help?
>>>
>>>
>>
>> Don't know ... a simple reproducible example would help ...
>>
>> (Some really really trivial things I tried worked, for example:
>>
>> z = rexp(100)
>> f1 = factor(rep(1:5,each=20))
>> f2 = factor(rep(1:2,each=50))
>> event = rep(1,100)
>> library(survival)
>> s1 = survfit(Surv(z,event)~f1)
>> s2 = survfit(Surv(z,event)~f2)
>> plot(s1)
>> lines(s2,col=2,type="s")
>>
>>> sessionInfo()
>> R version 2.6.0 (2007-10-03)
>> i486-pc-linux-gnu
>>
>> locale:
>> LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-8;LC_MONETARY=en_US.UTF-8;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C
>>
>> attached base packages:
>> [1] splines   stats     graphics  grDevices utils     datasets  methods
>> [8] base
>>
>> other attached packages:
>> [1] survival_2.34
>>
>>  Ben Bolker
>>
>>
>
>

-- 
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595