[ADMB Users] help with glmmADMB ZI; function maximizer failed

[Ben Bolker]

  Dave Fournier and I have been discussing this and have so far not been
able to figure out what's going wrong.  When I run this on my system
(3.2G RAM virtual Linux system running under VMware), there seems to be
a small memory leak but even after 15-20 minutes (when the program
finishes) it does not use more than about 20% of memory.  Some ideas for
diagnostics:

  * can you look at the Windows task manager/performance tab as you
attempt to run the model and see how much memory the system reports
being used?

  * can you download

http://www.math.mcmaster.ca/bolker/misc/glmmadmb.exe
http://www.math.mcmaster.ca/bolker/misc/glmmadmb.dat

  save them into a temporary working folder/directory; run

./glmmadmb

from a command window; and see what happens?  These are the 32-bit
Windows executable and the data file corresponding to your problem --
they *should* behave just the same as when you ran glmmADMB from within
R, and if they fail the same way then we will have ruled out one layer
of complexity.

  Ben Bolker



On 11-10-14 06:23 AM, Emma Rosenfeld wrote:
> Dear all, I am having some problems trying to run a GLMM model with
> zero-inflation using the alpha version of glmmADMB (0.6.4) using R
> (2.13.1) in Windows and I would greatly appreciate some help. My
> count response variable (number of birds: count) fits a negative
> binomial distribution and the explanatory variables are both
> continuous and categorical (species= 17). The three random effects
> are site (68 of them), season (1 or 2) and land class (1 to 6).
> Ideally I would also like to build in a variance structure to allow a
> different spread per land class. This is the model I'm trying to
> run: 
> (fm<-glmmadmb(count~species*btrees+species*built+species*btrees*built+(1|season)+(1|landclass)+(1|site),
> data=srp12, famil="nbinom", zeroInflation=TRUE))
> 
> I have read most of the supporting documents to glmmADMB and studied
> the examples but am still struggling to make headway.
> 
> This is the error message I get;
> 
> Memory allocation error -- Perhaps you are trying to allocate too
> much memory in your program Warning: running command
> 'C:\Windows\system32\cmd.exe /c
> "C:/R-2.13.1/library/glmmADMB/bin/windows32/glmmadmb.exe" -maxfn 500'
> had status 1 Warning in shell(cmd, invisible = TRUE) : 
> '"C:/R-2.13.1/library/glmmADMB/bin/windows32/glmmadmb.exe" -maxfn
> 500' execution failed with error code 1 Error in glmmadmb(count ~
> species * btrees + species * built + species *  : The function
> maximizer failed
> 
> I noticed the discussion entitled 'help with glmmADMB 0.6.4 -
> function maximizer failed' with Rafael Mares discusses similar
> problems. I have tried some of the suggested solutions, none of which
> have been recognised as code in R for some reaason.
> 
> I have also run:
> 
>> summary(fm)
> 
> Which results in:
> 
> Error in summary(fm) : object 'fm' not found
> 
> This has happened however the equation is labelled.
> 
> Perhaps there is a more appropriate package that I should be using
> (MCMCglmm)? I am quite new to R, so it is quite possible that I am
> missing something, so any help would be most appreciated.
> 
> Apologies for the long message!
> 
> Many thanks,
> 
> Emma Rosenfeld PhD student, School of Geography, Earth and
> Environmental Sciences, University of Birmingham
> 
> 
> 
> 
> 
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