Hi Mark, is there a chance that you could send me the logged SQL for your examples e.i one working and one not working as per your email below?
a On Thu, Jan 12, 2012 at 9:01 AM, Mark McDowall <[email protected]> wrote: > 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/ > > ______________________________**_________________ > Users mailing list > [email protected] > https://lists.biomart.org/**mailman/listinfo/users<https://lists.biomart.org/mailman/listinfo/users> > -- Arek Kasprzyk, MD, MSc, PhD BioMart Project Lead
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