[R-sig-ME] error message using glmmadmb

[RH Gibson, School Biological Sciences]

That would make sense as I am able to fit a zero-inflated negative binomial 
model, but not just the binomial. I have tried poisson too, but this gave 
me the same error message as trying to fit the binomial.

The y variable is a count, offset by a sample total. There is 
overdispersion and a lot of zeros in the data. Does using the zero-inflated 
negative binomial make sense here?

Thanks.


--On 05 March 2012 08:25 -0500 Ben Bolker <bbolker at gmail.com> wrote:

> On 12-03-05 06:00 AM, RH Gibson, School Biological Sciences wrote:
>> Updated to latest version and now having new problems:
>>
>> m3<-
>> glmmadmb(x~nsn*Insect.type+ara*Insect.type+rap*Insect.type+fsize+offset(
>> logTotal.grains)+(1|Site),data=data1, zeroInflation=TRUE,
>> family="binomial")
>> Error in glmmadmb(x ~ nsn * Insect.type + ara * Insect.type + rap *
>> Insect.type +  :
>>  The function maximizer failed (couldn't find STD file)
>> In addition: Warning message:
>> running command 'C:\WINDOWS\system32\cmd.exe /c "C:/Program
>> Files/R/R-2.14.2/library/glmmADMB/bin/windows32/glmmadmb.exe" -maxfn 500
>> -maxph 5 -noinit -shess' had status 1
>>
>
>   This now means that the optimization failed for some reason.
>   There are many reasons this can happen, mostly having to do with
> too-sparse or unusual data.  Without knowing anything about your data,
> the one thing that pops out is you are using a binomial family with
> zeroInflation=TRUE.  If your response is a matrix of successes and
> failures, that's unusual but plausible; if your response is a single 0/1
> vector, then it doesn't make sense to use zero-inflation.  (If your
> response is anything else it's odd too, although that probably would
> have been caught earlier.)
>   Try working through the troubleshooting steps under ?admbControl (and
> running with verbose=TRUE to see exactly what AD Model Builder reports
> as the problem).
>
>   Ben Bolker
>
>
>>
>> Can you help with this?
>>
>> Many thanks, Rachel.
>>
>> --On 01 March 2012 18:10 +0000 Ben Bolker <bbolker at gmail.com> wrote:
>>
>>> Ben Bolker <bbolker at ...> writes:
>>>
>>>  [snip]
>>>
>>>> If you do this:
>>>>
>>>> mydata <- data.frame(spdiv,nsn,ara,rap,Insect.type,fsize,Site)
>>>> glmmadmb(spdiv~(nsn+ara+rap)*Insect.type+fsize+(1|Site),family="nbinom
>>>> ")
>>>>
>>>> it ought to work.  However, it *should* work the way you specified -- I
>>>> will work on fixing the bug.
>>>>
>>>>   thanks
>>>>     Ben Bolker
>>>
>>>   This should be fixed now (i.e. in glmmADMB 0.7.2.7).
>>>   It's still a good idea to use the data= argument.
>>>
>>> _______________________________________________
>>> R-sig-mixed-models at r-project.org mailing list
>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mixed-models
>>
>>
>>
>> ----------------------
>> RH Gibson, School Biological Sciences
>> Rachel.Gibson at bristol.ac.uk
>



----------------------
RH Gibson, School Biological Sciences
Rachel.Gibson at bristol.ac.uk