[ADMB Users] new version of R2admb on R-forge
bolker at ufl.edu
Sat Aug 21 08:43:10 PDT 2010
That's not exactly the situation in which the errors/warnings occur.
They happen when one runs tpl2rem on a RE model that is "too simple":
as pointed out by Tom Wainwright on March 10
this is reproducible in the "liver_gamma" example that comes with ADMB:
> tpl2rem liver_gamma
cat: xxalloc4.tmp: No such file or directory
cat: xxalloc5.tmp: No such file or directory
Error executing command cat xxglobal.tmp xxhtop.tmp header.tmp
xxalloc1.tmp xxalloc2.tmp xxalloc3.tmp xxalloc4.tmp
xxalloc5.tmp xxtopm.tmp xxalloc6.tmp > liver_gamma.cpp
At least, it happens with my installation (release 9.1, running on
dave fournier wrote:
> Ben Bolker wrote:
> For the example simple.tpl
> If I type
> tpl2cpp simple
> on linux is just works.
> tpl2rem simple
> produces an (warning or error) message since there are no random effects in
> In neither case is the mesage exactly the same as what you have.
>> dave fournier wrote:
>>> You are getting the message
>>> cred <- coutfile[!substr(coutfile, 1, 85) %in% c("cat:
>>> xxalloc4.tmp: No such file or directory",
>>> "cat: xxalloc5.tmp: No such file or directory", "Error
>>> executing command cat xxglobal.tmp xxhtop.tmp header.tmp
>>> xxalloc1.tmp x")]
>>> because the indicated file is only created when using a particular
>>> option in the tpl file. It is not really an error because everything is
>>> working fine.
>> It's a bit confusing, but the R error actually occurred (I think) due
>> to the warning about safe mode ("-s") being obsolete/redundant. I've
>> added an (UNTESTED) bit of code on SVN that's supposed to pass warnings
>> from ADMB through to R's warning() system rather than considering them
>> errors and stopping. The complicated bit that Motoki quoted is used to
>> avoid an error when those (non-error) error messages pop up, by
>> explicitly ignoring them.
>> Motoki, could you test the latest version with safe=TRUE and
>> safe=FALSE and see if it works properly (i.e. warning when safe=TRUE,
>> running cleanly when safe=FALSE) ... ? (If I knew how to easily provoke
>> a non-fatal warning from ADMB, I would test it myself ...)
>> It would be really nice (wish list) if things that are not really
>> errors would not produce error messages ... that would help those of us
>> who are relatively new to ADMB and hence relatively clueless focus on
>> the things that are really wrong with our models ...
>> Ben Bolker
bbolker at gmail.com , bolker at mcmaster.ca
GPG key: http://www.math.mcmaster.ca/~bolker/benbolker-publickey.asc
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