Ah, I think it's happening because I have
setOldClass(AffymetrixCelSet) in my package.
I guess I need to use there where argument. But how do I have this call outside
any S4 functions, but without having to load aroma.affymetrix when my package
loads ?
---- Original message ----
>Date: Tue, 19 Apr 2011 19:23:20 -0700
>From: Martin Morgan <mtmor...@fhcrc.org>
>Subject: Re: [Rd] Package Name Not Found Warning
>To: d.strbe...@garvan.org.au
>Cc: r-devel@r-project.org
>
>On 04/19/2011 05:00 PM, Dario Strbenac wrote:
>> Hello,
>>
>> I've got a DESCRIPTION file with a the first line:
>>
>> Package: Repitools
>>
>> But, when I run R CMD INSTALL Repitools I get:
>>
>> * installing *source* package Repitools ...
>> ** R
>> ** data
>> ** inst
>> ** preparing package for lazy loading
>> Warning in FUN(X[[1L]], ...) :
>> Created a package name, "2011-04-20 09:05:40", when none found
>
>For what it's worth, this comes up when a class is being created in an
>environment that is not the global environment or does not have a
>variable .packageName, apparently added early in the name space creation
>process. You can mimic this with
>
> setClass("A", where=new.env())
>
>or
>
> local({ setClass("A", where=environment()) })
>
>Kind of doubt whether you've actually done something like that in your
>package, but maybe it twigs something...
>
>Also, if you add
>
> trace(methods::getPacakgeName, quote(print(where)))
>
>or
>
> trace(warning, quote(print(sys.calls())))
>
>somewhere early in your package (the top of the first file to be
>collated) you'll get messages that might point to where things are going
>wrong.
>
>Hope that helps,
>
>Martin
>
>> ** help
>> *** installing help indices
>> ** building package indices ...
>> ** testing if installed package can be loaded
>>
>> * DONE (Repitools)
>>
>> It looks like it knows about the package name at the start and end of the
>> process, but not in the middle of it.
>>
>> Loading the packing in an R session and looking at the sessionInfo shows the
>> package name was properly processed. Is this a spurious warning ?
>>
>> I'm using:
>> R version 2.13.0 (2011-04-13)
>> Platform: x86_64-unknown-linux-gnu (64-bit) (actually Ubuntu 10.10)
>>
>> --------------------------------------
>> Dario Strbenac
>> Research Assistant
>> Cancer Epigenetics
>> Garvan Institute of Medical Research
>> Darlinghurst NSW 2010
>> Australia
>>
>> ______________________________________________
>> R-devel@r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-devel
>
>
>--
>Computational Biology
>Fred Hutchinson Cancer Research Center
>1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109
>
>Location: M1-B861
>Telephone: 206 667-2793
--------------------------------------
Dario Strbenac
Research Assistant
Cancer Epigenetics
Garvan Institute of Medical Research
Darlinghurst NSW 2010
Australia
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