>>>>> Therneau, Terry M , Ph D <thern...@mayo.edu>
>>>>> on Sun, 15 Feb 2015 17:31:00 -0600 writes:
> I'm testing out a new version of coxme and R CMD check fails with "could
not find function
> ranef" (or random.effects or fixef, or anything from nlme). The
NAMESPACE file has the
> line below
> importFrom(nlme, ranef, random.effects, fixef, fixed.effects, VarCorr)
> and nlme is declared in the DESCRIPTION file as an import. I feel that I
must be staring
> at some obvious (but invisible to me) mistake.
are you using them in (help page) examples, demos, or vignettes
?
In that case, as you no longer 'Depend' on lme4, you need a
require(lme4)
before the corresponding code.
> Users are very likely to use "ranef" as well.
Well, and you are sure that you do not want them to see the help
file for ranef() ?
If a user of coxme() should typically use ranef() in her own code,
you should rather *depend* on lme4 than only *import* it.
> Second question. The files now declare bdsmatrix as an import rather
than a depends. If
> one of my test files has an explicit call to a bdsmatrix function, I
assume that I will
> need to put an explicit "require" there.
Sure. See above
> Third: How should "methods" be listed? I'm getting a message from CMD
check if I leave it
> in or leave it out.
this is not precise enough for me to help, rather we need exact details.
> An update to the survival package is forcing an update to one of the
tests in coxme (the
> "rats" data set in survival now has both male and female, prompted by a
user, but the test
> assumed the old version with only female). An update of the include vs
update material
> seemed in order as well.
??? {"nix verstahn" we'd say here}
> Terry Therneau
Martin Maechler
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