Hi,
I have hit a brick wall and am now not sure where to go.
I have a BioMart database generated from an ensembl schema, but the
ontology terms are associated with the transcript rather than the
translation.
When I run a query and request the Gene ID and the Accession I get a
result, but when I request the definition, evidence code etc etc I get
an error that reads:
ERROR: caught BioMart::Exception::Configuration: Attribute
'ontology_go__dm_dbprimary_acc_1074' not found in dataset
default.spombe_eg_gene
If you repeatedly get directed to this error page, there may be a
problem with your current session parameters. To clear your session
and start with a clean slate, please click the *New* button below.
Stacktrace:
Exception::Class::Base::throw
/homes/mcdowall/ensembl-website/martview/biomart-perl-1.7/lib/BioMart/Registry.pm:490
BioMart::Registry::getAttribute
/homes/mcdowall/ensembl-website/martview/biomart-perl-1.7/lib/BioMart/Query.pm:1243
BioMart::Query::addAttribute
/homes/mcdowall/ensembl-website/martview/biomart-perl-1.7/lib/BioMart/Web.pm:794
BioMart::Web::prepare_martquery
/homes/mcdowall/ensembl-website/martview/biomart-perl-1.7/lib/BioMart/Web.pm:2111
BioMart::Web::handle_request
/homes/mcdowall/ensembl-website/martview/biomart-perl-1.7/cgi-bin/martview:103
(eval)
/homes/mcdowall/ensembl-website/martview/biomart-perl-1.7/cgi-bin/martview:102
In marteditor I have cleared all the attribs exported, restarted the
editor, updated all and then reimported and I still get the same errors.
Does anyone have any clues as to where I can poke around next?
Thank you,
Mark
--
Mark McDowall Ensembl Genomes Bioinformatician
EMBL-EBI Tel: +44-(0)1223-494589
Wellcome Trust Genome Campus
Cambridge CB10 1SD, UK http://www.ensemblgenomes.org/
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