[BioC] Making data visible in packages (no visible binding for global variable ...)

[Tarca, Adi]

Thanks Richard,
It is indeed true that I do not get anymore "no visible binding"
message, but the script does not work anymore :).
I guess what happens is that, when the function tries to use X, it will
get the one defined in the function first (which is NULL)and not look
anymore for it the the global environment where the data() call will
bring it up and initialize it with the real values.
Regards,
Adi





-----Original Message-----
From: Richard Pearson [mailto:richard.pearson at postgrad.manchester.ac.uk]

Sent: Tuesday, October 28, 2008 5:38 AM
To: Tarca, Adi
Cc: bioconductor at stat.math.ethz.ch
Subject: Re: [BioC] Making data visible in packages (no visible binding
for global variable ...)

Adi

A rather inelegant way to avoid the "no visible binding" message is:

X <- NULL
data(myX)

Regards

Richard


Tarca, Adi wrote:
> Hi all,
> I am trying to write a package that contains one function MYF which 
> requires some data (e.g. a matrix X).
> I put the matrix X in the \data folder as a myX.Rdata file. The 
> function MYF makes a data(myX) call to make X available within MYF 
> before doing some computations.
> The resulting package gets installed and runs fine but when I do the R

> CMD CHECK I get "no visible binding for global variable X".
> I have two questions:
> A) is there a better way to make X visible within MYF rather than 
> making a data() call
> B) wht should be done to fix the "no visible binding for global 
> variable".
> 
> Thanks,
> 
> Adi Tarca
> 
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Richard D. Pearson             richard.pearson at postgrad.manchester.ac.uk
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