[R] include S4 class and methods in a package

[baptiste Auguié]

Thanks Haris, I eventually got this to work thanks to some off-list  
help and lots of trials and error. I have to admit I still don't  
understand all the details of the procedure (the "generic" paradigm  
in particular escapes me), but at least I have achieved a working  
example that I can alter and study step by step.

Thanks again,

Baptiste

On 28 Jun 2008, at 19:13, Charilaos Skiadas wrote:

> On Jun 27, 2008, at 1:44 PM, baptiste Auguié wrote:
>
>> DeaR list,
>>
>>
>> Pardon the stupidity of this question but I've been trying this  
>> for a while now without success.
>>
>> I've followed the example given in the green book "programming  
>> with data", and I now have a working example of a S4 class with a  
>> few methods (plot, summary, as.data.frame). It's all very nice in  
>> one file, but I cannot find the way to put this information in a  
>> package. I've created several simple packages (without S4 classes)  
>> in the past using package.skeleton and manual editing / adding of  
>> some files.
>> The question I have now is where do the setClass and setMethod  
>> live in the folder tree? I sort of believe they should be defined  
>> in a source file in the sub-directory R/, but is there a special  
>> name to give to these files, how do they get recognised during  
>> installation or build?
>>
>> I've tried to find the answer in "writing R extensions" but I must  
>> have missed the relevant section.
>
> I don't think there's any particular name needed for the file. I  
> had a look at Matrix for an example when I was writing an S4  
> package, and kind of followed what they were doing. In my example,  
> I had one file that had all the setGeneric calls, and another one  
> named after my S4 class containing setClass and setMethod. And then  
> you need to work on the NAMESPACE file. I think to some extent this  
> is described in "1.6.6 Name spaces with formal classes and methods".
>
> Hopefully someone more experienced than me can offer a more  
> authoritative answer.
>
>> Many thanks,
>>
>> Sincerely,
>>
>> Baptiste
>
> Haris Skiadas
> Department of Mathematics and Computer Science
> Hanover College
>
>> PS: I'm not sure a minimal example is relevant, I could provide  
>> one if requested.
>>
>> OS is MacOS 10.4,
>> > sessionInfo()
>> R version 2.7.0 RC (2008-04-21 r45421)
>> powerpc-apple-darwin8.10.1
>>
>> locale:
>> en_GB.UTF-8/en_US.UTF-8/C/C/en_GB.UTF-8/en_GB.UTF-8
>>
>> attached base packages:
>> [1] datasets  utils     stats     graphics  grDevices splines    
>> grid      methods   base
>>
>>
>> _____________________________
>>
>> Baptiste Auguié
>>
>> Physics Department
>> University of Exeter
>> Stocker Road,
>> Exeter, Devon,
>> EX4 4QL, UK
>>
>> Phone: +44 1392 264187
>>
>> http://newton.ex.ac.uk/research/emag
>> http://projects.ex.ac.uk/atto
>>
>
>
>
>

_____________________________

Baptiste Auguié

Physics Department
University of Exeter
Stocker Road,
Exeter, Devon,
EX4 4QL, UK

Phone: +44 1392 264187

http://newton.ex.ac.uk/research/emag
http://projects.ex.ac.uk/atto