[Biopython-dev] (no subject)

[Antonio Cavallo]

Hy,

there is my problem.
I would like to retrieve some accessions from embl data source, and I've 
read the tutorial so:

==================================================================================
>>> from Bio import db  
>>> sp = db["embl"]
>>> record_handle = sp['AA054823']
Traceback (most recent call last):
  File "<stdin>", line 1, in ?
  File 
"/home/users/antonio/usr/encap/biopython-1.23/lib/python/Bio/config/DBRegistry.py", 
line 152, in __getitem__
    data = self._run_serial(key)
  File 
"/home/users/antonio/usr/encap/biopython-1.23/lib/python/Bio/config/DBRegistry.py", 
line 219, in _run_serial
    raise KeyError, "I could not get any results."
KeyError: 'I could not get any results.'
==================================================================================


This error seems strange because that entry does exist!
Using other sources:


==================================================================================
>>> sp = db['embl-dbfetch-cgi']
>>> record_handle = sp['AA054823']
Traceback (most recent call last):
  File "<stdin>", line 1, in ?
  File 
"/home/users/antonio/usr/encap/biopython-1.23/lib/python/Bio/config/DBRegistry.py", 
line 89, in __getitem__
    return self._get(key)
  File 
"/home/users/antonio/usr/encap/biopython-1.23/lib/python/Bio/config/_support.py", 
line 109, in __call__
    return self.fn(*args, **keywds)
  File 
"/home/users/antonio/usr/encap/biopython-1.23/lib/python/Bio/config/DBRegistry.py", 
line 267, in _get
    handle = self._cgiopen(key)
  File 
"/home/users/antonio/usr/encap/biopython-1.23/lib/python/Bio/config/DBRegistry.py", 
line 274, in _cgiopen
    options = _my_urlencode(params)
  File 
"/home/users/antonio/usr/encap/biopython-1.23/lib/python/Bio/config/DBRegistry.py", 
line 561, in _my_urlencode
    params = params.items()
AttributeError: 'list' object has no attribute 'items'
==================================================================================

And more:

==================================================================================
>>> sp = db['embl-fast']
>>> record_handle = sp['AA054823']
Traceback (most recent call last):
  File "<stdin>", line 1, in ?
  File 
"/home/users/antonio/usr/encap/biopython-1.23/lib/python/Bio/config/DBRegistry.py", 
line 150, in __getitem__
    data = self._run_concurrent(key)
  File 
"/home/users/antonio/usr/encap/biopython-1.23/lib/python/Bio/config/DBRegistry.py", 
line 202, in _run_concurrent
    raise KeyError, "I could not get any results."
KeyError: 'I could not get any results.'
>>> 
==================================================================================




What's wrong? After installing the biopython-1.23 there is something else 
I have to do in order to get access to the embl database?
Sorry but I'm totally new to biopython.
Thank you in advance,
antonio