[ADMB Users] Installed glmm, admb 0.6 beta can't find function "glmm.admb"

[Shawn McCracken]

Just tried again.

32-bit:

> library(glmmADMB)
> epil2$subject <- factor(epil2$subject)
> fm <- glmmadmb(y ~ Base * trt + Age + Visit + (Visit | subject), family =
"nbinom", data = epil2)
Error in glmmadmb(y ~ Base * trt + Age + Visit + (Visit | subject), family =
"nbinom",  :
  glmmadmb binary should be available, but isn't

64-bit: same as above.

I'll keep trying whatever you suggest!

Thanks again,

Shawn




On Fri, Jul 29, 2011 at 4:31 PM, Ben Bolker <bbolker at gmail.com> wrote:

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>   [forwarding back to users group, for posterity ...]
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> On 11-07-29 05:31 PM, Shawn McCracken wrote:
> > Hello Ben,
> >
> > Thanks for your response.
> >
> > So I just tried it again and here is what I get:
> >
> >> fm <- glmmadmb(y ~ Base * trt + Age + Visit + (Visit | subject), data
> > = epil2, family = "nbinom")
> > Error in process_randformula(formula, data = data) :
> >   all grouping variables must be factors
>
>   glmmadmb is now fussier than before about insisting that grouping
> variables be factors. I could have made the software smarter, but it's
> easier to make users convert their grouping variables into factors ...
> (so just use epil2$subject <- factor(epil2$subject))
>
> >> fm <- glmmadmb(y ~ Base * trt + Age + Visit + (Visit | subject),
> > family = "nbinom", data = epil2)
> > Error in process_randformula(formula, data = data) :
> >   all grouping variables must be factors
>
>    same again (this looks identical, except for switching the order of
> the last two arguments, which should never matter as long as they're
> both named)
>
> >> fm <- glmmadmb(y ~ Base * trt + Age + Visit + (Visit | subject),
> > family = nbinom, data = epil2)
> > Error in glmmadmb(y ~ Base * trt + Age + Visit + (Visit | subject),
> > family = nbinom,  :
> >   object 'nbinom' not found
> >
>
>   "nbinom" needs to be in quotation marks.
>
> > I tried changing the syntax a bit and no luck. I would offer to compile
> > a TPL file but wouldn't have a clue where to start. Also, in your
> > document dated April 26,2011 under 'Overview of user guides and package
> > vignettes it still shows glmm.admb in the example model.
>
>   Oops, will fix.
>
> > Alright, I just
> > realized the 32-bit version of R is also installed on my computer and so
> > I tried that. Same errors as above. I know you like to keep these posts
> > on the mailing lists, should I resubmit with our email test copied in?
>
>   Can you try
>
> epil2$subject <- factor(epil2$subject)
> fm <- glmmadmb(y ~ Base * trt + Age + Visit + (Visit | subject),
>    family = "nbinom", data = epil2)
>
>  with the 32-bit version?
>
> >
> > I am so very eager to get to try the new version out with multiple
> > random effects! Will it also handle nested effects?
>
>   I think so (but again, not thoroughly tested, so let me know how it
> goes).
>
>   One warning is that the new version will be a bit slower than the old
> for single-random-effect cases -- we can probably fix that, but I will
> have an easier time twisting Hans and Dave's arms to work on it if we
> can get the package out and get people using it (and complaining).
>
>  cheers
>    Ben
>
>
> >
> > Thank you,
> >
> > Shawn
> >
> >
> > On Fri, Jul 29, 2011 at 4:10 PM, Ben Bolker <bbolker at gmail.com
> > <mailto:bbolker at gmail.com>> wrote:
> >
> >
> >  I can't seem to find the original message now, so the thread may get
> > broken, but ...
> >
> >  The name of the primary function has changed from "glmm.admb" to
> > "glmmadmb" in the new release.
> >
> >  However, I'm sorry to say that I think the development version of the
> > package won't work for you on a MacOS 64-bit machine because we don't
> > have the binary built.  (If someone wants to compile a TPL file from the
> > current SVN version of ADMB (10.1 won't do) on a 64-bit MacOS platform
> > and send me the results, I can send the TPL file).
> >
> >  We are on the verge (I hope, with breath held and fingers crossed) of
> > having the Buildbot automatically make these so I can incorporate them
> > in the package ... Johnoel has been working hard ...
> >
> >  Ben
> >
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