[Bioperl-l] Fascinating bug...

[Matthew Vaughn]

I've been working on implementing a generic microarray data viewer 
built on top of the Generic Genome Browser. This has required dealing a 
lot with aggregators, which, I have gathered from the documentation, 
are implemented via Bio::DB::GFF. Well, I found the most fascinating 
bug (or maybe it's a feature). In the configuration file for GGB, one 
can specify custom aggregators like so:

aggregators = agg_wt_expression_1{expression_1:WT} transcript (and so 
on..)

I was building names for these aggregators dynamically and the values 
used to build them contained capital letters. I discovered, after much 
gnashing of teeth, that while the above aggregator would work, this one 
will not.

aggregators = agg_WT_expression_1{expression_1:WT}

I assume this is some odd behavior inherited from the Bio::DB::GFF 
module, which is why I am mentioning it here.

What is going on? Any enlightened opinions?

--
Matthew W. Vaughn, Ph.D.
Cold Spring Harbor Laboratory
Delbruck Laboratory / Martienssen Group
1 Bungtown Road
Cold Spring Harbor, NY 11724