[EMBOSS] EMBOSS remote server list?

Peter Rice pmr at ebi.ac.uk
Fri Oct 10 08:45:20 UTC 2008

Ashika Umanga Umagiliya wrote:
> Thanks all for the responses,
> As Alan said I changed 'srs7bin' to 'srsbin' and tried executing both of 
> following queries:
>  entret em:ab000131
>  entret uni:opsd_human
> And gave the following debug log.

Many thanks. Easy to spot now.

In all your definitions, like this one:

>>> DB em [  type: N method: srswww format: embl release: "EBI"
>>>   url: "http://srs.ebi.ac.uk/srs7bin/cgi-bin/wgetz";
>>>   dbalias: "EMBL"
>>>   comment: "EMBL from the EBI" ]

There is an extra ';' character at the end of the URL.

Unfortunately this breaks the parsing of quotes. it loses the "dbalias"
definition, and also gives an invalid URL.

You should be able to retrieve from all the databases with the ';' removed.


Peter Rice

More information about the EMBOSS mailing list