[Bioc-devel] warning in R CMD check

[Joern Toedling]

Actually the remark about spelling out TRUE instead of T is even more
relevant to your question than I thought. You may want to use 'quietly',
but the reason for your warning in check is really the 'T'. Put
character.only=TRUE and the warning should be gone.

Joern Toedling wrote:
> Hi Alex,
>
> use the function's argument 'quietly' to suppress the warning.
>
> require(anotPack, character.only=TRUE, quietly=TRUE)
>
> btw, I would suggest to spell out TRUE in functions, since some users
> might unwisely have used 'T' as a variable name.
>
> Regards,
> Joern
>
>
> ALEXANDRE SANCHEZ PLA wrote:
>   
>> Hello
>>
>> I am trying to build a package to upload it to Bioconductor-
>> The package builds correctly using R-2.6.2 and Bioconductor 2.1 but R CMD check
>> issues the following warning: 
>>
>> --------------------------------------------------------------
>> * checking for unstated dependencies in R code ... WARNING
>>
>> 'library' or 'require' calls not declared from:
>>
>>   anotPkg anotPack
>>
>> See the information on DESCRIPTION files in the chapter 'Creating R
>>
>> packages' of the 'Writing R Extensions' manual.
>>
>> ---------------------------------------------------------------
>>
>> 'anotPkg' or 'anotPack' are not package names indeed. I use them as argument
>> to pass any annotation package names to a function which will load them in
>> execution time.
>>
>> It is as if I wanted to have a 'loadAnnotations' function in my package which
>> could be as follows:
>>
>> loadAnnotations <- function (anotPack){
>>   if (!require(anotPack, character.only=T))
>>      cat("Could not load the package")
>> }
>>
>>
>> So my question is: what should I do if I wanted to include such a function in my
>> package to avoid the warning?
>>
>> Thanks for any suggestions
>>
>> Alex Sanchez
>> Departament d'Estadistica. Universitat de Barcelona
>>
>>