[Bioperl-l] experimental Bio::Search::Tiling implementation

Chris Fields cjfields at illinois.edu
Tue May 19 21:14:36 EDT 2009

On May 19, 2009, at 7:07 PM, Sendu Bala wrote:

> Steve Chervitz wrote:
>> Great work. My SearchUtils tiling function has been lingering for far
>> too long (at least a decade).
> I actually reworked it a little from revisions r10199 to r11247.
> Mark: tricky.wublast and frac_problems.blast were the test files  
> that had problems that needed solving.
> The corresponding tests were in SearchIO.t but have since  
> (hopefully!) been moved to another test file somewhere.

They should be in t/SearchIO/blast.t; the SearchIO tests were split up  
based on format.  Was there a bug linked to these that need to be  
merged with Mark's?

Mark: great work!  I suppose the next step is to try refactoring the  
relevant methods in HSPI's to see what happens.


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