[Biopython] Question about efetch output format

jorma kala jjkk73 at gmail.com
Thu Sep 3 12:06:19 EDT 2009


Hi,
I'm trying to retrieve a record from protein database (I found the record id
by running Entrez.esearch)

    handle = Entrez.efetch(db="protein", id='483329',mode='xml')
    print handle.read()
Although I specify xml mode, the result comes in a quite confusing format
using braces  (I've pasted a snippet at the end of the email)

Do you know what I should do to get it in xml?
Many thanks


+++++++ Output


Seq-entry ::= set {

level 1 ,

class nuc-prot ,

descr {

title "Aspergillus flavus aflatoxin (aflR) gene, and translated products" ,

source {

org {

taxname "Aspergillus flavus" ,

db {

{

db "taxon" ,

tag

id 5059 } } ,

orgname {

name

binomial {


More information about the Biopython mailing list