[Bioc-devel] suppressing warn from Biobase

Bazeley, Peter Peter.Bazeley at rockets.utoledo.edu
Mon Jul 19 02:24:49 CEST 2010

Thank you, Patrick. I went with the latter option. It seems like a safer move in the long run.
From: Patrick Aboyoun [paboyoun at fhcrc.org]
Sent: Saturday, July 17, 2010 2:02 PM
To: Bazeley, Peter
Cc: bioc-devel at stat.math.ethz.ch
Subject: Re: [Bioc-devel] suppressing warn from Biobase

Oops. I didn't read you message closely enough. Rather placing Biobase
in the Depends field, I recommend you place it in the "Imports" field,
and then in the NAMESPACE file, import only the symbols that you need.

That being said, using "."'s in function names is generally a bad idea
for this very reason and should be avoided. Consider using a camel case
naming convention, e.g. combineQuantileFreqs, for all your function names.


On 7/17/10 11:50 AM, Patrick Aboyoun wrote:
> ?suppressWarnings
> Patrick
> On 7/16/10 11:23 PM, Bazeley, Peter wrote:
>> Dear List,
>> I am creating a package, where one function's name is
>> "combine.quantile.freqs". There is a "combine" method in package
>> Biobase. My package Depends on Biobase, so it is installed. I get the
>> following warning message the first time I use combine.quantile.freqs
>> in a session:
>> Warning message:
>> In findGeneric(f,parent.frame()) :
>>    'combine' is a formal generic function; S3 methods will not likely
>> be found
>> My naming scheme of "combine" followed by a period is causing R to
>> think this is class method (or something along those lines). Is there
>> someway I can suppress this warning message? I could just use a
>> different naming scheme, but I like the way it is.
>> Thank you,
>> Peter Bazeley
>>     [[alternative HTML version deleted]]
>> _______________________________________________
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