Error from inter.calc, possibly related to missing grid number

[hrlai]

The three-species script fails with the following errors:

Error in { : 
  task 1 failed - "NA/NaN/Inf in foreign function call (arg 1)"
Calls: inter.calc -> %dopar% -> <Anonymous>

This happens consistently at around year 6. I suspect it is related to a new warning message related to the p_bz function:

In addition: Warning message:
In rbinom(n = length(linear.p), prob = 1/(1 + exp(-linear.p)), size = 1) :
  NAs produced

Still debugging it, but very slowly. Any idea?

[hrlai]

When I ran the script locally with very high dilution factor (1000), it did not fail.

My gut feeling is still that largish dilution factor (>10) generates some zero-length population vectors...

[hrlai]

Since it says arg 1, if it means the first argument in inter.calc then trees.hetero may be the culprit.

[wengngai]

Sorry for the slow reply. Did settting the dilution factor back to 10 resolve the issue? I can't really figure out what is wrong, because I cannot replicate the error. But I agree that you're probably right that all of the seedlings might have died out, leaving a zero-length n to the rbinom function? Is the model running now or are we still looking for a fix before restarting the simulation?

[hrlai]

Did settting the dilution factor back to 10 resolve the issue?

Yes it did. The output is now pushed. Let's deal with the issue later. Closing for now.

[hrlai]

Opening this issue again, because I am facing the same issue now as of b87ab095b23686872d00fda4fecb5a080e85bf01 .

In year 2 I got the following error message:

task 579 failed - "NA/NaN/Inf in foreign function call (arg 1)"

and troubleshot it to the inter.calc function. The root seems to be the grid column in ppoS having NAs:

> summary(ppoS)
       x                y            logheight          grid      
 Min.   :366994   Min.   :153004   Min.   :1.970   Min.   : 1.00  
 1st Qu.:367133   1st Qu.:153150   1st Qu.:2.879   1st Qu.: 6.00  
 Median :367291   Median :153268   Median :3.067   Median :13.00  
 Mean   :367268   Mean   :153267   Mean   :3.067   Mean   :12.75  
 3rd Qu.:367400   3rd Qu.:153393   3rd Qu.:3.253   3rd Qu.:19.00  
 Max.   :367496   Max.   :153507   Max.   :4.153   Max.   :25.00  
                                                   NA's   :90 

Are these the seedlings that dispersed outside of the map extent, so they have NA ?

[wengngai]

sorry I must have missed this. I've checked and you are right. these grid NAs are all from just outside the boundary. I've inserted a quick and dirty fix. we will eventually make the landscape a torus so I think that this fix is good enough for now

[hrlai]

Nice this seems to have been resolved now. The simulation runs into 10+ as of now without issue.