R help - May 2013 - Error running caret's gbm train function with new version of caret

I am running caret for model exploration. I developed my code a number of
months ago and I've been running it with no issues. Recently, I updated my
version of caret however, and now I am getting a new error. I'm wondering
if this is due to the new release.

The error I am getting is when I am running GBM.

        print(paste("calculating GBM for", i))
        #gbm runs over and over again
        set.seed(1)
        trainModelGBM <- train(trainClass3, trainAsym, "gbm",
metric="RMSE",
                            tuneLength = 5, trControl = con)

The error I am getting is at the end of the run once all the iterations
have been processed:
Error in { :
  task 1 failed - "arguments imply differing number of rows: 5, 121"

trainClass3 and trainAsym have 311 values in them. I'm using 5 variables in
my matrix. I'm not sure where the 117 is coming from.

I found solutions online that suggested that updated the version of glmnet,
Matrix and doing something with cv.folds would work. None of these
solutions have worked for me.

Here is my R session info.

R version 2.15.1 (2012-06-22)
Platform: x86_64-unknown-linux-gnu (64-bit)

caret version 5.15-61

Thank you,

Katrina

	[[alternative HTML version deleted]]

Katrina,

I made some changes to accomidate gbm's new feature for 3+ categories,
then had to "harmonize" how gbm and caret work together.

I have a new version of caret that is not released yet (maybe within a
month), but you should get it from:

   install.packages("caret",
repos="http://R-Forge.R-project.org")

You may also need to ungrade gbm. That package page is:

   https://code.google.com/p/gradientboostedmodels/downloads/list

Let me know if you have any issues.

Max

On Sat, May 4, 2013 at 5:33 PM, Katrina Bennett <kebennett at alaska.edu>
wrote:
> I am running caret for model exploration. I developed my code a number of
> months ago and I've been running it with no issues. Recently, I updated
my
> version of caret however, and now I am getting a new error. I'm
wondering
> if this is due to the new release.
>
> The error I am getting is when I am running GBM.
>
>         print(paste("calculating GBM for", i))
>         #gbm runs over and over again
>         set.seed(1)
>         trainModelGBM <- train(trainClass3, trainAsym, "gbm",
metric="RMSE",
>                             tuneLength = 5, trControl = con)
>
> The error I am getting is at the end of the run once all the iterations
> have been processed:
> Error in { :
>   task 1 failed - "arguments imply differing number of rows: 5,
121"
>
> trainClass3 and trainAsym have 311 values in them. I'm using 5
variables in
> my matrix. I'm not sure where the 117 is coming from.
>
> I found solutions online that suggested that updated the version of glmnet,
> Matrix and doing something with cv.folds would work. None of these
> solutions have worked for me.
>
> Here is my R session info.
>
> R version 2.15.1 (2012-06-22)
> Platform: x86_64-unknown-linux-gnu (64-bit)
>
> caret version 5.15-61
>
> Thank you,
>
> Katrina
>
>         [[alternative HTML version deleted]]
>
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> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.


-- 

Max