[Bioc-sig-seq] Extracting DNA sequences from BSgenome.Mmusculus.UCSC.mm9_1.3.11

[Hervé Pagès]

Hi Ivan,

Ivan Gregoretti wrote:
[...]
> 
> 
>> Hopefully this time you won't get hit by the infamous bug you reported
>> earlier (BTW anything new on that front? Were you able to reproduce it?
>> Thanks).
>>
> 
> Bug? Last time I was in real trouble I solved my problem with
> Michael's suggestions on the use of RangedData. But that was a feature
> rather than a bug. Bottom line, I stick to RangedData now because it
> is relatively easy to manipulate it.

I was talking about the bug discussed here (you'll have to scroll down a
little bit to see what I'm talking about):

   https://stat.ethz.ch/pipermail/bioc-sig-sequencing/2009-May/000359.html

You reported you've been hit by this bug (I call it the infamous bug), like
other people before you. It's an obscure bug that is quite hard to reproduce,
and it's very annoying because it tends to hit people in the middle of a long
analysis).
So any feedback on that front would be really helpful (e.g. some simple code
that is likely to trigger it). Thanks!

H.


> 
> Thank you,
> 
> Ivan
> 
> 
> Ivan Gregoretti, PhD
> National Institute of Diabetes and Digestive and Kidney Diseases
> National Institutes of Health
> 5 Memorial Dr, Building 5, Room 205.
> Bethesda, MD 20892. USA.
> Phone: 1-301-496-1592
> Fax: 1-301-496-9878
> 
> _______________________________________________
> Bioc-sig-sequencing mailing list
> Bioc-sig-sequencing at r-project.org
> https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
> 

-- 
Hervé Pagès

Program in Computational Biology
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