[Bioc-devel] ornery package: Users are warned that some or all of the manufacturer supplied files that this package is based on have been labeled as unsupported by their sources

Wolfgang Huber whuber at embl.de
Sat Jan 15 11:07:26 CET 2011

Hi Marc

thank you! How about something like:

Warning from hugene10stv1cdf: the data in this package are based on 
mapping files labeled as 'unsupported' by their source.

	Best wishes

Il Jan/15/11 12:45 AM, Marc Carlson ha scritto:
> Hi Wolfgang,
> Sorry that our warning was confusing to you.  That warning is just
> trying to tell you that Affymetrix has put the base mapping files online
> and then, right next to these files has placed the ambiguous and scary
> sounding warning that these files are "unsupported".
> We felt that you should be aware about what the manufacturer had said
> about that,  and other users have agreed with us that they wanted to be
> warned about this message so we have passed it along as a warning that
> loads when the package is loaded.  Sometime before the next release, I
> will adjust the code that is issuing the warning, and the packages that
> need to call this code, so that you can at least know more clearly which
> package is issuing by the warning even if you are calling it from
> several layers away.  But in the meantime, if you have an alternate
> wording for the warning that you think would be more clear, please let
> us know.
>    Marc
> On 01/12/2011 10:48 AM, Wolfgang Huber wrote:
>> Hi
>> I noted that loading hugene10stv1cdf produces the above message, which
>> eventually seems to stem from AnnotationDbi.
>> I first encountered this when running a script that processes an
>> Affymetrix dataset where that CDF package was 'autoloaded', and was
>> quite puzzled.
>> * Would it make sense if the message stated explicitly from which
>> package it is emitted?
>> * A warning is given, but so what? Can the message be more
>> constructive about what I should do about it?
>> Thanks and best wishes
>> Wolfgang
>> http://www.embl.de/research/units/genome_biology/huber
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Wolfgang Huber

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