[R-sig-Geo] raster package and predict for GBM models

[Michael ODonnell]

Robert, sorry. Yes, myData is my gbm object. 

Also, I figured out what I had done wrong. The raster stack I created specified a data set name that was lowercase and the the gbm model was specifying upper case for the same raster layer. Once I use the correct name, it worked.

Thank you for the response.
Mike


--- On Thu, 11/4/10, Robert J. Hijmans <r.hijmans at gmail.com> wrote:

> From: Robert J. Hijmans <r.hijmans at gmail.com>
> Subject: Re: [R-sig-Geo] raster package and predict for GBM models
> To: "Michael ODonnell" <odonnems at yahoo.com>
> Cc: r-sig-geo at stat.math.ethz.ch
> Date: Thursday, November 4, 2010, 10:58 AM
> Hi Mike,
> 
> I cannot know from what you send, but the second argument
> should be
> your gbm object, and from your name "myData" I am guessing
> it is not
> (unless it really is referring to youModel).
> One of the two vignettes of the 'dismo' package is about
> 'gbm'
> (boosted regression trees) and 'raster' . So in principle
> it should
> work.
> 
> Robert
> 
> 
> On Thu, Nov 4, 2010 at 7:34 AM, Michael ODonnell <odonnems at yahoo.com>
> wrote:
> > Hello,
> >
> > I have little experience using the raster package and
> I am currently trying to develop a predicted surface based
> on a gradient boosted model (gbm package).
> >
> > The basic steps I am using include the following:
> >
> > # Creating a raster stack of independent variables
> > USHGT <- raster("ushgt.asc", package="raster")
> > ... (other variables omitted for post)
> > ras_stk <- stack(USHGT, HYELB, T1TO5LE, URBD_D,
> SG_UNIT, MINTEMP, ANNPCP, TC_B04, TC_B07)
> >
> > # Create the prediction model
> > ... I am using a separate script that creates the gbm
> object and due to the length I will not include. The outcome
> is a gbm object.
> >
> > .. Now I use the following, which fails:
> > r <- predict(ras_stk, myData, filename=OutFile,
> na.rm=TRUE, overwrite=TRUE, n.trees=myData$n.trees,
> type="response", progress="window")
> >
> > Error:
> > Error in
> model.frame.default(terms(reformulate(object$var.names)),
> newdata,  :object is not a matrix
> >
> > The raster package manual states that the predict
> function will work on any model that a predict method has
> been implemented.
> >
> > Does anyone have experience with this or possibly an
> idea on how I might solve the issue.
> >
> > Thank you,
> > mike
> >
> > _______________________________________________
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> > R-sig-Geo at stat.math.ethz.ch
> > https://stat.ethz.ch/mailman/listinfo/r-sig-geo
> >
>