Hi Gabriel,
the virtualSchemaName is "metazoa_mart_4".
you can programmatically find this information out by using the
following registry request:
http://metazoa.ensembl.org/biomart/martservice?type=registry
Best,
Syed
On 30/08/2010 21:36, Richard Holland wrote:
They've changed the virtualSchemaName as well as the dataset names - you should
use 'metazoa_mart_4' instead. Check the XML button in their MartView to see an
example and look closely at the opening Query tag.
cheers,
Richard
On 30 Aug 2010, at 21:05, Gabriel Berriz wrote:
Hi. When I submit the following query to
http://metazoa.ensembl.org/biomart/martservice:
<Query completionStamp="1" virtualSchemaName="default" uniqueRows="1"
requestId="biomart-client">
<Dataset interface="default" name="aaegypti_eg_gene">
<Attribute name="ensembl_gene_id"/>
</Dataset>
</Query>
I get the following error:
Query ERROR: caught BioMart::Exception::Usage: WITHIN Virtual Schema : default,
Dataset aaegypti_eg_gene NOT FOUND
I get similar errors in response to the following queries:
(also to http://metazoa.ensembl.org/biomart/martservice)
<Query completionStamp="1" virtualSchemaName="default" uniqueRows="1"
requestId="biomart-client">
<Dataset interface="default" name="agambiae_eg_gene">
<Attribute name="ensembl_gene_id"/>
</Dataset>
</Query>
(to http://plants.ensembl.org/biomart/martservice)
<Query completionStamp="1" virtualSchemaName="default" uniqueRows="1"
requestId="biomart-client">
<Dataset interface="default" name="athaliana_eg_gene">
<Attribute name="ensembl_gene_id"/>
</Dataset>
</Query>
In contrast, analogous queries to http://uswest.ensembl.org/biomart/martservice
work fine; for example:
<Query completionStamp="1" virtualSchemaName="default" uniqueRows="1"
requestId="biomart-client">
<Dataset interface="default" name="btaurus_gene_ensembl">
<Attribute name="affy_bovine"/>
</Dataset>
</Query>
Can someone tell me what I'm doing wrong in the failing queries above?
TIA!
Gabriel Berriz
=============================================================
Gabriel F. Berriz, PhD
Senior Bioinformatics Developer
Roth Lab
Biological Chemistry and Molecular Pharmacology -- Harvard Medical School
250 Longwood Avenue
Seeley G. Mudd Building 322B
Boston, MA 02115-5701
Telephone: 617.432.3555
Fax: 617.432.3557
--
Richard Holland, BSc MBCS
Operations and Delivery Director, Eagle Genomics Ltd
T: +44 (0)1223 654481 ext 3 | E: holl...@eaglegenomics.com
http://www.eaglegenomics.com/
