Hadassa Brunschwig
Birmannsgasse 10A
CH-4055 Basel
Switzerland
Phone: +41 78 797 6065
Email: h.brunschwig at utoronto.ca
Quoting Uwe Ligges <ligges at statistik.uni-dortmund.de>:
> Hadassa Brunschwig wrote:
>
> > Hi R-Help!
> >
> > I am trying to use R2WinBUGS but I get the following error message in
> WinBUGS
> > (and there must be something wrong with my R statement as I tried it
> directly in
> > WinBUGS and it worked):
> >
> > display(log)
> > check(C:/Documents and Settings/Daikon/Roche/pop_model.txt)
> > model is syntactically correct
> > data(C:/Documents and Settings/Daikon/Roche/data.txt)
> > expected key word structure
> > compile(7)
> > ...(and of course nothing works after that)
> >
> > and when I close WinBUGS i get:
> > Error in file(file, "r") : unable to open connection
> > In addition: Warning message:
> > cannot open file 'codaIndex.txt'
> >
> > Does anyone know what this 'expected key word structure' means?
> > This is my R code (and I guess my model file is ok):
> >
> > modelA <- c("C:/Documents and Settings/Daikon/Roche/pop_model.txt")
> > n <- length(unique(subsetA$subject)) #number of subjects
> > nt <- 13 #number of days
> > Y <- subsetA$concentr #concentration per
> day/subject
> > t <- 1:13 #days
> > dataA <- list("n","nt","Y","t")
> > parameters <-
> c("tau","C0","st90","C0.pop","st90.pop","tau.cpop","tau.stpop")
> > inits <-
> >
>
list(tau=c(1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1),C0=5,st90=4,C0.pop=5,st90.pop=4,tau.cpop=0.2,tau.stpop=1)
> > mcmcA <-
> >
> bugs(dataA,inits,parameters,modelA,debug=T,n.chains=7,bugs.directory="c:/Program
> > Files/WinBUGS14",working.directory="C:/Documents and
> Settings/Daikon/Roche")
>
>
>
> Which versions of R, WinBUGS and R2WinBUGS?
> Your example is not reproducible for us.
>
> I'd take a look whether dimensions are OK and whether subsetA$concentr
> is in appropriate object, but without data and model file I am unable to
> help for the data part.
>
>
> For the inits part, please see ?bugs:
>
> inits: a list with n.chains elements; each element of the list is itself
> a list of starting values for the WinBUGS model, or a function creating
> (possibly random) initial values. Alternatively, if inits = NULL,
> initial values are generated by WinBUGS
>
> Looks like you want to have the same inits for each chain. In order not
> to repeat the inits 7 times, you might want to specify them simply as a
> function such as:
>
> inits <- function(){
> list(tau = rep(1, 17), C0 = 5, st90 = 4, C0.pop = 5, st90.pop = 4,
> tau.cpop = 0.2, tau.stpop = 1)
> }
>
>
> Uwe Ligges
>
>
> [Further correspondence on this particular topic, please respond to to
> the package maintainer (Sibylle) and me directly rather than to R-help.]
>
>
> >
> > Thanks so much...
> >
> > Hadassa
> >
> >
>
>