>>>>> Robin Hankin <rksh1 at cam.ac.uk>
>>>>> on Wed, 10 Nov 2010 09:53:30 +0000 writes:
> Hello everyone. R-2.12.0, suse linux 11.3.
> I am debugging a package that uses S4 methods
> and R CMD check gives the following warning:
>> Warning in methods::findMethods(g, env) :
>> non-generic function 'mdm' given to findMethods()
>> See the information on DESCRIPTION files in the chapter
'Creating R
>> packages' of the 'Writing R Extensions' manual.
> I don't see anything obvious in that part of the R-exts but
> FWIW, here is my DESCRIPTION file:
>> Package: multivator
>> Type: Package
>> Title: A multivariate emulator
>> Version: 1.0-1
>> Depends: R(>= 2.10.0), emulator, methods, utils
>> Date: 2009-10-27
>> Author: Robin K. S. Hankin
>> Maintainer: <hankin.robin_nospamAT_gmail.com>
>> Description: A multivariate generalization of the emulator package
>> License: GPL-2
>> LazyLoad: yes
> I think that the lines in question in my package are:
>> setClass("mdm", # "mdm" == "multivariate
design matrix"
>> representation = representation(
>> xold = "matrix",
>> types = "factor"
>> )
>> )
>>
>>
>>
setGeneric("mdm",function(xold,types){standardGeneric("mdm")})
>>
setMethod("mdm",signature("matrix","factor"),function(xold,
types){
>> new("mdm", xold=xold, types=types)
>> } )
> which appear to execute without warning on a virgin console. In the
> package, there are three
> or four other S4 classes which are on the same footing as the mdm
class,
> but do not appear to generate a warning from R CMD check.
> The same happens AFAICS on R-2.13, 53543
> Can anyone advise on how to deal with the warning?
It is probably simply the *order* of your R/*.R files which matters:
The setGeneric() has to come before all its setMethod()s.
A maintenance-intensive solution to the problem is to use a
'Collate:' field in your DESCRIPTION.
A much simpler approach is what we've done in the Matrix
package: use R/AllClasses.R and R/AllGenerics.R
to put all setClass(.) and all setGeneric(.) calls,
respectively.
(and ensure not to use other file names that collate *before*
'All*' in some locales).
Martin
> thank you
> Robin
> --
> Robin K. S. Hankin
> Uncertainty Analyst
> University of Cambridge
> 19 Silver Street
> Cambridge CB3 9EP
> 01223-764877
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