[EMBOSS] Antwort: 30 entries only

[David.Bauer at SCHERING.DE]

Hi Marleno,

SRS has a default limit of 30 entries/page.
So it seems that you are getting only the first page of results from the
server.
If you want to run queries with such results, it may be a good idea to
download the uniprot flat file from the ebi ftp server, index it with the
EMBOSS dbxflat and than run the queries locally.
But if this is not an option due to limited resources, I guess Peter will
have an idea how to get the other result pages out of SRS with the srswww
method. ;-)

Cheers,
David.

emboss-bounces at lists.open-bio.org schrieb am 23/10/2006 23:49:07:

> Does anybody know how to solve this problem:
>
> I use Emboss via srswww method and everything seems to work fine until I
> ask seqret or infoseq (or any other application that searches the
> database) for many sequences  (for example typing: "seqret
> database-des:kinase"). The output consists only of 30 entries even
> though the same query on srs.ebi.ac.uk results in a 6-digit number of
> entries. What shall I do to get all the entries I want? Is it a problem
> with Emboss or rather srs policy of sending data?
>
>
> Just in case you would like to see my emboss.default:
>
> DB zuniprot [
> methodquery: srswww
> format: swiss
> type: P
> fields: "id acc sv des key org"
> dbalias: uniprot
> url: "http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz"
> comment: "uniprot/swiss via srswww"
> ]
>
> DB zswiss [
> methodquery: srswww
> format: swiss
> type: P
> fields: "id acc sv des key org"
> dbalias: swissprot
> url: "http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz"
> comment: "swissprot via srswww"
> ]
>
> DB zembl [
> type: N
> methodquery: srswww
> format: embl
> fields: "id acc key sv des org"
> dbalias: embl
> url: "http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz"
> comment: "embl via srswww"
> ]
>
>
> Thanks in advance,
> Marlena Roszczyk
>
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