[Bioc-devel] some new warnings in a package

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 Aut??noma 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