> Date: Thu, 21 Feb 2008 08:16:10 -0500> From: [EMAIL PROTECTED]> To:
> rpy-list@lists.sourceforge.net> Subject: Re: [Rpy] help with the package
> survival> > On Thu, Feb 21, 2008 at 8:08 AM, Lore Merdrignac <[EMAIL
> PROTECTED]> wrote:> >> > Hi,> > I have a problem with the package "survival"
> in rpy. I have to use the> > function survit() , and it works with R but not
> by calling R from python> > with rpy :> >> > >>> ss=r.survfit(s,weights=pds)>
> > Traceback (most recent call last):> > File "<interactive input>", line 1,
> in ?> > RPy_RException: Erreur dans UseMethod("survfit") : pas de méthode
> applicable> > pour "survfit"> >> > It seems that there is nothing implemented
> in rpy for this function...> > Do you know how I can manage this problem ?
> Have I made mistakes ? Or do> > you know what function I could use to have
> similar results ?> > Lore,> > You'll probably need to show how you construct
> "s", as it seems that> survfit is looking for a particular type of object. If
> "s" is not a> formula or a coxph object, that would explain the error. Note
> that> there is type-conversion going on in rpy, so even though "s" might>
> have started out as the correct type of object, it may not be by the> time
> you are calling the function here.> > Sean>
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Thank you for your reply Sean.
So, this is how I proceed with R :
> d=rep(1,41)> t=c( rep(6,5), rep(9,3) , rep(12,24), rep(15,9) )>
> plot(survfit(Surv(t,d)))And I get a graph of life span.
With rpy :
>>> from rpy import r>>> r.library("survival")>>> d=r.rep(1,41)>>> t=r.c(
>>> r.rep(6,5), r.rep(9,3) , r.rep(12,24), r.rep(15,9) )>>>
>>> r.plot(r.survfit(r.Surv(t,d)))Traceback (most recent call last): File
>>> "<interactive input>", line 1, in ?RPy_RException: Erreur dans
>>> UseMethod("survfit") : pas de méthode applicable pour "survfit"
Or :
>>> s=r.Surv(t,d)>>> ss=r.survfit(s)Traceback (most recent call last): File
>>> "<interactive input>", line 1, in ?RPy_RException: Erreur dans
>>> UseMethod("survfit") : pas de méthode applicable pour "survfit"
Is there a mistake...?
Thank you for your time Sean.
Lore.
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