[EMBOSS] External DB problems

Stefanie Lager stefanielager at fastmail.ca
Wed Dec 1 12:58:03 UTC 2004


Hi,

In version 2.8.0 of EMBOSS I have problems to access external databases
(UniProt)using methods URL and SRSWWW. It's not a proxy problem since 

app: "wget http://www.ebi.ac.uk/cgi-bin/dbfetch?db=UniProt&id=%s" 

works nice. 

But I can't get

DB uniprot [ 
type: P
format: embl
method: url
url: "http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[uniprot-AllText:%s]"
]

or

DB uniprot [ 
type: P
format: embl
method: srswww
url: "http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz"
]


to work. In both cases it trys for a very long time and then times out
with the message: 

"Error: socket connect failed for database 'uniprot'
socket connect failed for database 'uniprot': Connection timed out"

Does anyone know what could be wrong?

Stefanie
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