[Rd] WARNING Undocumented S4 methods 'initialize' - why?

[cstrato]

Dear all,

I am just writing the documentation file for S4 class 'QualTreeSet' and 
get the following warning with R CMD check:

* checking for missing documentation entries ... WARNING
Undocumented S4 methods:
  generic 'initialize' and siglist 'QualTreeSet'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.

All my S4 classes have a method 'initialize' and R CMD check has never 
complained. Thus, do you have any idea why I get suddenly this warning 
for method 'initialize'?


Here is the code for 'QualTreeSet':

setClass("QualTreeSet",
   representation(qualtype = "character",
                  qualopt  = "character"
   ),
   contains=c("ProcesSet"),
   prototype(qualtype = "rlm",
             qualopt  = "raw"
   )
)#QualTreeSet

setMethod("initialize", "QualTreeSet",
   function(.Object,
            qualtype = "rlm",
            qualopt  = "raw",
            ...)
   {
      if (qualtype == "") qualtype <- "rlm";
      if (qualopt  == "") qualopt  <- "raw";

      .Object <- callNextMethod(.Object,
                                qualtype = qualtype,
                                qualopt  = qualopt,
                                ...);
      .Object@qualtype = qualtype;
      .Object@qualopt  = qualopt;
      .Object;
   }
)#initialize


However, here is my code for a similar class 'ExprTreeSet' (which is the 
class from where I have copied the code):

setClass("ExprTreeSet",
   representation(exprtype = "character",
                  normtype = "character"
   ),
   contains=c("ProcesSet"),
   prototype(exprtype = "none",
             normtype = "none"
   )
)#ExprTreeSet

setMethod("initialize", "ExprTreeSet",
   function(.Object,
            exprtype = "none",
            normtype = "none",
            ...)
   {
      if (exprtype == "") exprtype <- "none";
      if (normtype == "") normtype <- "none";

      .Object <- callNextMethod(.Object,
                                exprtype = exprtype,
                                normtype = normtype,
                                ...);
      .Object@exprtype = exprtype;
      .Object@normtype = normtype;
      .Object;
   }
)#initialize

In this case R CMD check does not complain, so why does it in the case 
of 'QualTreeSet'?

Here is my:
> sessionInfo()
R version 2.12.1 (2010-12-16)
Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)

locale:
[1] C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] xps_1.11.4

Thank you in advance
Best regards
Christian
_._._._._._._._._._._._._._._._._._
C.h.r.i.s.t.i.a.n   S.t.r.a.t.o.w.a
V.i.e.n.n.a           A.u.s.t.r.i.a
e.m.a.i.l:        cstrato at aon.at
_._._._._._._._._._._._._._._._._._

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