[R-sig-ME] Interdependence of lme and lmer methods?

[Douglas Bates]

You are correct, the lme4 and nlme package mask methods from each
other.  It is not recommended that you have both of them attached in
the same session.

On 9/26/07, David Afshartous <dafshartous at med.miami.edu> wrote:
>
> All,
>
> Has anyone noticed interdependence of lmer and lmer methods, i.e., problems
> w/ methods when one is estimating models via both lme and lmer in the same
> session?  Example below. I searched the archives and didn't see anything.
>
>
> > sessionInfo()
> R version 2.5.1 (2007-06-27)
> i386-apple-darwin8.9.1
>
> locale:
> en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
>
> attached base packages:
> [1] "stats"     "graphics"  "grDevices" "utils"     "datasets"  "methods"
> "base"
>
> other attached packages:
>     nlme
> "3.1-84"
> > fm1 = lme(Thickness ~ 1, random = ~ 1 | Lot, Oxide)
> > ranef(fm1)
>   (Intercept)
> 1   -3.702524
> 2  -11.996179
> 3    0.928997
> 4   -4.779622
> 5   14.392722
> 6   20.747600
> 7   -8.764885
> 8   -6.826109
> ## ranef methol works fine.
> ## now load lme4 via menu far:
> Loading required package: Matrix
> Loading required package: lattice
> > ranef(fm1)
> Error in function (classes, fdef, mtable)  :
>     unable to find an inherited method for function "ranef", for signature
> "lme"
>
> ## ranef no longer works
> ## load nlme again via menu bar
>
> Attaching package: 'nlme'
>
>
>     The following object(s) are masked from package:lme4 :
>
>      BIC,
>      VarCorr,
>      fixef,
>      gsummary,
>      lmList,
>      pooledSD,
>      ranef
>
> > ranef(fm1)
>   (Intercept)
> 1   -3.702524
> 2  -11.996179
> 3    0.928997
> 4   -4.779622
> 5   14.392722
> 6   20.747600
> 7   -8.764885
> 8   -6.826109
>
> ## now it works fine
>
> In the other direction, similar problems for ranef on lmer models.
> for both directions, quick fix solution is to re-load the package for
> which the ranef statement applies
>
>
> Cheers,
> David
>
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