R devel - Oct 2011 - multiple defines of diag

The current coxme code has functions that depend on bdsmatrix and others
that depend on Matrix, both those pacakges define S4 methods for diag.
When loaded, the message appears:
   replacing previous import ?diag? when loading ?Matrix? 

Questions:
  1. Do I need to worry about this?  If so, what can I do about it?
I suppose I could add an importFrom directive, but it will be a pain
unless there is an "allbut(diag)" option I'm not aware of.  (I
assume
that methods and classes can be listed in importFrom, i.e., there are no
importMethodsFrom or importClassesFrom functions).

  2. If I don't need to worry, is there a way to turn the message off?
I as a developer need to see it, but users don't and it may worry them
unnecessarily.  Updating all 17 of my test/*.Rout.save files is a
nuisance as well, but only a nuisance.

I'd like to upload this to CRAN soon as I have users asking for the
updated lmekin function (which uses Matrix).  In the long term all the
bdsmatrix functions will be replaced by Matrix, but that requires major
changes to C code so "long" is the operative word. 

Thanks,
  Terry T.

Terry,

if you're using two packages that both define a diag function/method
you absolutely _have_ to resolve this using your NAMESPACE.  [Update:
I see both are methods.  I actually don't know what happens when you
have the same generic in both packages]

And yes, there is both an importClassesFrom and importMethodsFrom.

Since import() grabs everything you need to selectively import
functions/methods/classes from at least one of the two packages.  I
have been in the same situation, and it is painful to figure out all
the stuff you need from the package you selectively import.  A while
ago I suggested having something like
  importExcept
to selectively exclude specific functions when you have a name clash,
but I don't think anyone took up my suggestion.

Kasper

On Thu, Oct 6, 2011 at 8:06 AM, Terry Therneau <therneau at mayo.edu>
wrote:
> The current coxme code has functions that depend on bdsmatrix and others
> that depend on Matrix, both those pacakges define S4 methods for diag.
> When loaded, the message appears:
> ? replacing previous import ?diag? when loading ?Matrix?
>
> Questions:
> ?1. Do I need to worry about this? ?If so, what can I do about it?
> I suppose I could add an importFrom directive, but it will be a pain
> unless there is an "allbut(diag)" option I'm not aware of.
?(I assume
> that methods and classes can be listed in importFrom, i.e., there are no
> importMethodsFrom or importClassesFrom functions).
>
> ?2. If I don't need to worry, is there a way to turn the message off?
> I as a developer need to see it, but users don't and it may worry them
> unnecessarily. ?Updating all 17 of my test/*.Rout.save files is a
> nuisance as well, but only a nuisance.
>
> I'd like to upload this to CRAN soon as I have users asking for the
> updated lmekin function (which uses Matrix). ?In the long term all the
> bdsmatrix functions will be replaced by Matrix, but that requires major
> changes to C code so "long" is the operative word.
>
> Thanks,
> ?Terry T.
>
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