[BioC] DNAString ("GC") -- error in nchar?

[Herve Pages]

Hi Martin, Henrik,

Thanks for looking at this. Maybe you'd like to know that Biostrings defines
methods for "nchar", hence this line of output at installation time:

  Creating a new generic function for "nchar" in "Biostrings"

See here

  http://bioconductor.org/checkResults/2.1/bioc-LATEST/Biostrings/lamb1-buildsrc.html

for the complete output on lamb1.

There are actually "nchar" methods for BString, BStringViews and BStringAlign objects
in Biostrings. Could this be related to the problem?

Thanks again!
H.


Henrik Bengtsson wrote:
> There is almost always a simple explaination.  So, what does
> 
>> print(nchar)
> 
> give your in a clean and "non-clean" R session, and especially what
> environment(s) are reported?
> 
> Also, scan for all occurances of nchar():
> 
> res <- apropos("nchar", where=TRUE);
> names(res) <- search()[as.integer(names(res))];
> print(res);
> 
> Any clues?
> 
> /Henrik
> 
> On 9/28/07, Paul Shannon <pshannon at systemsbiology.org> wrote:
>> Good idea, Martin:  in a clean R, nchar works fine.
>>
>> Stranger and stranger...
>>
>>   - Paul
>>
>>
>> On Sep 28, 2007, at 3:19 PM, Martin Morgan wrote:
>>
>>> I wonder what traceback() says immediately after the error, and
>>> whether you get the message in a clean R (R --vanilla from the command
>>> line; do not load Biostrings)?
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> 
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