R help - Sep 2011 - parsing error when using R CMD check

Hi all,

I am trying to run R CMD check on a package which passes R CMD INSTALL.
The check stops because of a parsing problem in the example of a given function
at this line:

return(res[res$ID %in% list$targetGeneSets,])

The code is ok, since it runs if I paste it in R.
Is this a known parsing issue in R CMD check?
Thanks,
Adi
> sessionInfo()
R version 2.13.0 (2011-04-13)
Platform: x86_64-unknown-linux-gnu (64-bit)

Thanks,



Adi Laurentiu TARCA, Ph.D.
Assistant Professor (Research),
Department of Computer Science & Center for Molecular Medicine and Genetics,
Wayne State University,
Director, Bioinformatics and Computational Biology Unit,  Perinatology Research
Branch (NICHD),
3990 John R., Office 4809,
Detroit, Michigan 48201
Tel: 1-313-5775305


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On 11-09-16 4:48 PM, Tarca, Adi wrote:
> Hi all,
>
> I am trying to run R CMD check on a package which passes R CMD INSTALL.
> The check stops because of a parsing problem in the example of a given
function at this line:
>
> return(res[res$ID %in% list$targetGeneSets,])
>
> The code is ok, since it runs if I paste it in R.
> Is this a known parsing issue in R CMD check?
Percent signs in Rd files are comments unless they are escaped.  The 
parser sees your code as

return(res[res$ID

Rewrite it as

return(res[res$ID \%in\% list$targetGeneSets,])

Duncan Murdoch
> Thanks,
> Adi
>
>> sessionInfo()
> R version 2.13.0 (2011-04-13)
> Platform: x86_64-unknown-linux-gnu (64-bit)
>
> Thanks,
>
>
>
> Adi Laurentiu TARCA, Ph.D.
> Assistant Professor (Research),
> Department of Computer Science&  Center for Molecular Medicine and
Genetics, Wayne State University,
> Director, Bioinformatics and Computational Biology Unit,  Perinatology
Research Branch (NICHD),
> 3990 John R., Office 4809,
> Detroit, Michigan 48201
> Tel: 1-313-5775305
>
>
> 	[[alternative HTML version deleted]]
>
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