[Biomod-commits] Error in newx$cptable[max(keep), 1L] <- cp : subscript out of bounds

[jason b mackenzie]

Dear all,

I recently had a BIOMOD run crash mid-stream after 20+ species appear to have run successfully. The error message is pasted below. Any ideas or workarounds? 

...
#####			 ERFA2 			#####
#####		   pseudo-absence run 1        		#####
Model=Artificial Neural Network 
	 3 Fold Cross Validation + 3 Repetitions 
Calibration and evaluation phase: Nb of cross-validations:  3 
Evaluating Predictor Contributions in  ANN ... 
Model=Classification tree 
	 50 Fold Cross-Validation 
Error in newx$cptable[max(keep), 1L] <- cp : subscript out of bounds
> warnings()
Warning messages:
1: In predict.lm(object, newdata, se.fit, scale = 1, type = ifelse(type ==  ... :
  prediction from a rank-deficient fit may be misleading
2: In cor(g.pred[, ], as.integer(.Rescaler4(as.numeric(predict(model.sp,  ... :
  the standard deviation is zero
...


FYI, not sure if this matters, but my starting conditions were set as follows:

Initial.State(Response=SP.ENV[,12:75], Explanatory=SP.ENV[,4:11], IndependentResponse=NULL, 
		IndependentExplanatory=NULL)

Models(GLM = FALSE, GAM = TRUE, Spline=4, GBM = TRUE, No.trees = 3000, CTA = TRUE, CV.tree = 50, ANN = TRUE, CV.ann = 3, 
		SRE = TRUE, quant = 0.025, FDA = TRUE, MARS = TRUE, RF = TRUE, NbRunEval = 3, DataSplit = 70, 
		Yweights = NULL, Roc = TRUE, Optimized.Threshold.Roc = TRUE, Kappa = TRUE, TSS = TRUE, 
		KeepPredIndependent = FALSE, VarImport = 5, NbRepPA = 2, strategy = "sre", nb.absences = 1000)


Thanks in advance for any help!

Cheers, 
Jason


--

jason b mackenzie
80 banambila street
aranda, act 2614

0447 002 629  [mobile]
jasonbmackenzie    [skype]




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