After I updated my R from 2.2.0 to 2.3.1, it is working fine now. Thanks!
Mike
On 8/23/06, Prof Brian Ripley <[EMAIL PROTECTED]> wrote:
>
> Your example works for me without any error messages in R 2.3.1 with the
> current (uncredited) MASS package 7.2-27.1, including giving about 20 'ok
> here.'.
>
> Did you heed the advice in the posting guide to update (as well as to tell
> us the versions of things you were using)? Probably not (as you sent HTML
> mail)!
>
> [One thing you are leaving out is
>
> > library(MASS)
>
> ]
>
>
> On Wed, 23 Aug 2006, Mike Wolfgang wrote:
>
> > Thanks Bill and Simon. I wrote a simpler function to test and found out
> it
> > was stepAIC which causes error, and I still don't know how to solve it.
> > Check out this simple function:
> >
> >
> > myfun<-function(k){
> > xx<-mvrnorm(100,rep(0,10),diag(1,10),empirical=TRUE)
> > colnames(xx)<-paste("x",1:10,sep='')
> > py<-exp(sum(xx))/(1+exp(sum(xx)))
> > for (i in 1:k){
> > y<-rbinom(100,1,py)
> > mydata<-data.frame(cbind(y,xx))
> > y.glm<-glm(y~.,binomial,mydata)
> > cat("ok here.\n")
> > y.step<-stepAIC(y.glm,direction='both',trace=0)
> > cat("ok here.\n")
> > print(summary(y.step))
> > }
> > }
> >
> > myfun(10)
> >
> > only one "ok here" is printed.
> >
> > Mike
> >
> > On 8/22/06, [EMAIL PROTECTED] <[EMAIL PROTECTED]> wrote:
> > >
> > > Mike Wolfgang asks:
> > >
> > > >
> > > > From: [EMAIL PROTECTED]
> > > [mailto:[EMAIL PROTECTED] On Behalf Of Mike Wolfgang
> > > > Sent: Wednesday, 23 August 2006 1:31 PM
> > > > To: R-help list
> > > > Subject: [R] glm inside one self-defined function
> > > >
> > > > Hi list,
> > > >
> > > > I've searched in R-help and found some related discussions but still
> > > could
> > > > not understand this type of error. My own function is pretty
> complex,
> > > so I
> > > > would not put it here, but the basic algorithm is like this:
> > > > myfun<-function(k){
> > > > mydata<-...#by someway I create a data frame
> > > > mymodel<-glm(y~.,family=binomial(),data=mydata)
> > > > ...#some other stuff
> > > > }
> > >
> > > I think you are leaving out something. Here is a test of what you
> > > claim gives a problem (R 2.3.1, Windows):
> > >
> > > > myfun <- function(n) {
> > > + z <- rnorm(n)
> > > + mydata <- data.frame(x = z,
> > > + y = rbinom(n, size = 1, prob = exp(z)/(1+exp(z))))
> > > + fm <- glm(y ~ x, binomial, mydata)
> > > + fm
> > > + }
> > > >
> > > > myfun(100)
> > >
> > > Call: glm(formula = y ~ x, family = binomial, data = mydata)
> > >
> > > Coefficients:
> > > (Intercept) x
> > > 0.1587 1.0223
> > >
> > > Degrees of Freedom: 99 Total (i.e. Null); 98 Residual
> > > Null Deviance: 137.6
> > > Residual Deviance: 118.3 AIC: 122.3
> > >
> > > Not even a murmur of complaint. (This also works in S-PLUS 7.0 but
> > > earlier versions of S-PLUS gave a problem rather like the one you
> note,
> > > curiously.)
> > >
> > > Look again at your code and see if the abstract version you give
> > > really matches what you did, may I suggest?
> > >
> > > >
> > > > as I execute this function, it gives error like this
> > > > Error in inherits(x, "data.frame") : object "mydata" not found
> > > >
> > > > So I guess glm here tries to find "mydata" in the parent
> environment.
> > > Why
> > > > doesn't it take "mydata" inside the function? How to let glm
> correctly
> > > > locate it? Is this (scope/environment) mentioned in R manual?
> Thanks,
> > > >
> > > > Mike
> > >
> >
> > [[alternative HTML version deleted]]
> >
> > ______________________________________________
> > R-help@stat.math.ethz.ch mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-help
> > PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> > and provide commented, minimal, self-contained, reproducible code.
> >
>
> --
> Brian D. Ripley, [EMAIL PROTECTED]
> 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
>
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