[BioPython] Changes in NCBI BLAST output format !!??

[Alexander A. Morgan]

Hello:
    I've just run into the same problem, and I haven't seen a suggested 
fix go by, so I apologize if this is redundant information, but it seems 
that the files I've been getting from NCBI have a <p> removed from the 
header between the "RID: " line and the "<p>Query" line, and it is just 
a blank line now.  If you edit Bio.Blast.NCBIWWW to not look for the 
"<p>", it seems to work okay.
 
class _Scanner:
....
   def _scan_header(self, uhandle, consumer):
....

    change:
        attempt_read_and_call(uhandle, consumer.noevent, start='<p>')
    to: 
        attempt_read_and_call(uhandle, consumer.noevent)





aurelie.bornot at free.fr wrote:

>Thank you very much Jessica !!!
>
>Unfortunately, I need a lot of thing in the BLAST reports.....
>It will be difficult to do the same thing as you did....
>
>I will try to do something in the code of parser of Python.
>But it will be difficult for me..
>so if you or someone has advices !!!
>
>Thanks a lot again for your answer Jessica !
>Aurélie
>
>
>--------------
>Aurelie BORNOT
>MNHN
>Paris
>
>
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