[ensembl-dev] Error during query execution using Refseq mRNA IDs as Filter

Johannes Meisig j.meisig at biologie.hu-berlin.de
Thu Oct 6 15:16:47 BST 2011


Hi,

a month I started using Ensembl/Biomart to find Ensembl Gene IDs
corresponding to Refseq IDs. When I tried it again yesterday it didn't
work anymore.

Selecting Ensembl Gene ID and Ensembl Transcript ID as attributes and
Refseq mRNA ID with the Mus musculus genes dataset I get the error
attached to this message on the website.

The error can be easily reproduced by plugging in the example ID
NM_01195597 into the ID list. Is this problem known? Is there anything I
should do differently?

Thanks,
Johannes

Serious Error: Error during query execution: Table
'ensembl_mart_64.ox_RefSeq_mRNA__dm' doesn't exist

ERROR: caught BioMart::Exception::Database: Error during query
execution: Table 'ensembl_mart_64.ox_RefSeq_mRNA__dm' doesn't exist

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
/ensemblweb/wwwmart/www_64/biomart-perl/lib/BioMart/Dataset/TableSet.pm:241
BioMart::Dataset::TableSet::_fillAttributeTableWith
/ensemblweb/wwwmart/www_64/biomart-perl/lib/BioMart/Dataset/TableSet.pm:124
BioMart::Dataset::TableSet::_getResultTable
/ensemblweb/wwwmart/www_64/biomart-perl/lib/BioMart/DatasetI.pm:1170
BioMart::DatasetI::getResultTable
/ensemblweb/wwwmart/www_64/biomart-perl/lib/BioMart/QueryRunner.pm:472
BioMart::QueryRunner::_processPath
/ensemblweb/wwwmart/www_64/biomart-perl/lib/BioMart/QueryRunner.pm:374
BioMart::QueryRunner::_getResultTable
/ensemblweb/wwwmart/www_64/biomart-perl/lib/BioMart/QueryRunner.pm:194
BioMart::QueryRunner::execute
/ensemblweb/wwwmart/www_64/biomart-perl/lib/BioMart/Web.pm:2464
(eval) /ensemblweb/wwwmart/www_64/biomart-perl/lib/BioMart/Web.pm:2216
BioMart::Web::handle_request
/ensemblweb/wwwmart/www_64/biomart-perl/cgi-bin/martview:100
(eval) /ensemblweb/wwwmart/www_64/biomart-perl/cgi-bin/martview:99
ModPerl::ROOT::ModPerl::Registry::ensemblweb_wwwmart_www_64_biomart_2dperl_cgi_2dbin_martview::handler 

/localsw/lib/perl5/site_perl/5.8.9/x86_64-linux-thread-multi/ModPerl/RegistryCooker.pm:204
(eval)
/localsw/lib/perl5/site_perl/5.8.9/x86_64-linux-thread-multi/ModPerl/RegistryCooker.pm:204
ModPerl::RegistryCooker::run
/localsw/lib/perl5/site_perl/5.8.9/x86_64-linux-thread-multi/ModPerl/RegistryCooker.pm:170
ModPerl::RegistryCooker::default_handler
/localsw/lib/perl5/site_perl/5.8.9/x86_64-linux-thread-multi/ModPerl/Registry.pm:31
ModPerl::Registry::handler -e:0
(eval) -e:0





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