[Basta-users] out$lifetable errors

[Cliff Cunningham]

Dear Fernando and Owen,

	I get the "NULL" when I type
out$lifetable

even  when I make all the birthdates at 1979 (within the time of the study), though these errors disappear:

>> .Warning messages:
>> 1: In max(DeathAges, na.rm = TRUE) :
>>   no non-missing arguments to max; returning -Inf
>> 2: In max(wa) : no non-missing arguments to max; returning -Inf
>> 3: In MakeLifeTable(x, ax = 0.5, n = 1) : NAs introduced by coercion



	On the very bright side I was able to calculate a great life table by hand that made perfect sense when I used

out$Xq

	to output all the ages at death.  This gave exactly the qx's I was expecting (since this example had 100% recapture rate, just to test the output).  

	So its not that it wasn't calculating the ages at death.
	
	All the best!

   	Cliff Cunningham


        Professor
	Biology Department
    	Duke University
        130 Science Drive
	Durham NC 27708
	Phone 919-660-7356

http://www.biology.duke.edu/cunningham




On Nov 7, 2011, at 11:23 AM, Colchero, Fernando wrote:

> Dear Cliff,
> 
>    Were all birth times in 1978? If that's the case, then the life table cannot be constructed because it uses non-truncated individuals (i.e. only those that were born during the study). Still, we do have a bug, since the model should report that more explicitly. We'll try to fix it as soon as possible.
> 
>    Best,
> 
>    Fernando
> 
> ______________________________________________
>  
> Fernando Colchero
> 
> Max Planck Institute for Demographic Research
> Konrad Zuse Str. 1, 18057, Rostock, Germany
> Tel:  +49 (0) 381 2081 113
> Fax: +49 (0) 381 2081 529
> E-mail: Colchero at demogr.mpg.de
> ______________________________________________
> 
> 
> 
> 
> 
> On Nov 7, 2011, at 11:03 AM, Cliff Cunningham wrote:
> 
>> Dear BaSTa,
>> 	After several runs I have typed  out$lifetable and got the following
>> 
>> > out$lifetable
>> NULL
>> 
>> 	I should report I got several warning messages (see bottom) when I ran the following: 
>> Survival parameters converged appropriately. 
>> DIC was calculated
>> .Warning messages:
>> 1: In max(DeathAges, na.rm = TRUE) :
>>   no non-missing arguments to max; returning -Inf
>> 2: In max(wa) : no non-missing arguments to max; returning -Inf
>> 3: In MakeLifeTable(x, ax = 0.5, n = 1) : NAs introduced by coercion
>> 
>> 
>> My code was as follows, 
>> 
>> out <- basta(object = Males.dat$newData, studyStart = 1979, studyEnd = 1982, burnin=1000 ,niter=10000, nsim=4, parallel=TRUE, ncpus=4)
>> 
>> 	In this one I had all the birthdays at 1978, and first captures in 1979.
>> 
>> 
>> 
>> 
>> Here are the errors from the 
>> Multiple simulations finished.
>> Total MCMC computing time: 3.91 minutes
>> 
>> Thanks so much!!
>> 
>>    	Cliff Cunningham
>> 
>> 
>>         Professor
>> 	Biology Department
>>     	Duke University
>>         130 Science Drive
>> 	Durham NC 27708
>> 	Phone 919-660-7356
>> 
>> http://www.biology.duke.edu/cunningham
>> 
>> 
>> 
>> 
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