[Bioc-devel] some new warnings in a package

[Ramon Diaz-Uriarte]

On Fri, 29-04-2016, at 23:49, Martin Morgan <martin.morgan at roswellpark.org> wrote:
> On 04/29/2016 05:23 PM, Ramon Diaz-Uriarte wrote:
>> Dear All,
>>
>> In case it matters, and since we are past the 22, I just noticed that a
>> package I maintain (ADaCGH2) is giving warnings in Linux and Mac (e.g.,
>> https://www.bioconductor.org/checkResults/devel/bioc-LATEST/ADaCGH2/zin2-checksrc.html)
>> that, if I recall correctly, were not being given around the 22nd. I think
>> these warnings have started appearing with the latest Rs in BioC (around
>> r70549?). I haven't been able to understand the ultimate cause of the
>> warnings (as they seem to refer to issues that are not in the code of my
>> package), but they disappear when I move a package from Imports to Depends.
>
> They seem to come from GLAD's use of packageStartupMessage() in .onLoad 
> (e.g., when the package is imported) rather than the recommended 
> .onAttach (when the package is attached to the search() path, e.g., via 
> library() or Depends: in the DESCRIPTION file).
>
> I updated GLAD to use packageStartuupMessage() in .onAttach; I think the 
> warnings will go away.

Martin, thanks for the reply and details. And sorry for my
not-particularly-explicit message; yes, GLAD is the package that I moved to
Depends. And I did not say (though I had intended too ---time to go to bed)
that I had committed my changes to svn.

Anyway, should I revert my changes to keep GLAD in Imports?

Best,

R.


>
> Martin
>
>>
>>
>> Best,
>>
>> R.
>>
>>
>>
>>
>
>
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-- 
Ramon Diaz-Uriarte
Department of Biochemistry, Lab B-25
Facultad de Medicina
Universidad Autónoma de Madrid 
Arzobispo Morcillo, 4
28029 Madrid
Spain

Phone: +34-91-497-2412

Email: rdiaz02 at gmail.com
       ramon.diaz at iib.uam.es

http://ligarto.org/rdiaz