[BioPython] Running local blast (Problem solved!)

[Sebastian Bassi]

Hi,

Now it works! I really donīt know why, because I changed so many things 
at once, I donīt know wich change made it works.
I will post now the working version if someone is interested in picking 
up the difference(s). I wonīt do it because Iīm tired of debugging my 
programs and now that it works its time to look at the results!
Thank to everybody. I will stay here since I have a lot to learn on 
Python an BioPython.

Here is the program:


# BATCH BLAST. By Sebastian Bassi for Advanta Seeds.
from Bio.Blast import NCBIStandalone
import os
import string
import re

pathdb="d:\\projects\\bioinfo-adv\\blast\\data\\atal.faa"
blastexe="d:\\projects\\bioinfo-adv\\blast\\blastall.exe"
pathin="D:\\projects\\bioinfo-adv\\set-cd-small\\"
filesentr="D:\\projects\\bioinfo-adv\\set-cd-small"
pathout="blastbatch\\out"

print "OK 1"
cont = 0

# mando todos los files de set-cd-complete a una lista

listaentrada=os.listdir(filesentr)
for x in listaentrada:
    cont = cont + 1
    blast_out, error_info = NCBIStandalone.blastall(blastexe, 'blastx', 
pathdb, pathin+x)
    salida=open(pathout+x+".blasted.txt","w")
    salida.writelines(blast_out)
    salida.close()
    print "Blast numero "+`cont`+" "+x
print "FIN"
print "OK 2 re ok"


-- 
Best regards,

//=\ Sebastian Bassi - Diplomado en Ciencia y Tecnologia, UNQ   //=\
\=// IT Manager Advanta Seeds - Balcarce Research Center -      \=//
//=\ Pro secretario ASALUP - www.asalup.org - PGP key available //=\
\=// E-mail: sbassi@genesdigitales.com - ICQ UIN: 3356556 -     \=//

         ASALUP investiga: http://argentinaworks.asalup.org