[Biopython-dev] NCBI-XML blast parser

[Peter]

david coornaert wrote:
> I'm currently using this bio-python ncbiXML blast output parser
> 
>>From the cvs I fetched I see some comments about useless nature of
>  Hsp_query_to
> and Hsp_hit_to
> 
> Well, I need those, and can't for sure calculate it simply from
> hsp_align_len (which is not included either)
> because I should I manage the max len of query, hit and align string)
> then take care of the strand to know wether to increase or decrease,
> 
> So I've worked out a parrallel copy of the parser,
> but I'd like to know  why are these considered useless  ?
> Should I commit these harmless changes ? (hence cvs access)
> 
> ???

Hi David

Could you file a bug and attach your patch to it please?  (Trying to 
send attachments to the mailing list can be a bit unreliable).  Then 
hopefully some of the group can at least try it out...

Out of interest, what version of Blast have you been using?  Online or 
standalone?

(If you've been following the list, we think the NCBI have changed the 
format returned for multiple queries in version 2.2.14)

Thanks

Peter