[BioPython] Problem with blast xml

[Michiel De Hoon]

>From looking at the XML files, it seems that the Biopython Blast XML parser
is doing the right thing. Isn't it?

--Michiel.

Michiel de Hoon
Center for Computational Biology and Bioinformatics
Columbia University
1150 St Nicholas Avenue
New York, NY 10032



-----Original Message-----
From: Sebastian Bassi [mailto:sbassi at gmail.com]
Sent: Fri 10/5/2007 1:39 AM
To: Michiel De Hoon
Cc: biopython at biopython.org
Subject: Re: [BioPython] Problem with blast xml
 
On 10/4/07, Michiel De Hoon <mdehoon at c2b2.columbia.edu> wrote:
> Can you create two minimal XML files that demonstrate the problem?
> For example, by removing records from the two files you have and checking
if
> parsing still works for one and fails for the other.
> By doing so, you may be able to identify exactly what the essential
> difference between the two files is.

After some tests, I found two minimal XML files with this issue:
http://www.bioinformatica.info/mitoA.xml
http://www.bioinformatica.info/mitoB.xml

(only 3.5 kb each).


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