Hi. The following queries result in the server-side errors shown:
<Query completionStamp="1" virtualSchemaName="default" uniqueRows="1"
requestId="biomart-client">
<Dataset interface="default" name="dmelanogaster_gene_ensembl">
<Attribute name="merops"/>
</Dataset>
</Query>
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Unknown column
'ensembl_mart_59
.dmelanogaster_gene_ensembl__ox_MEROPS__dm.translation_id_1068_key' in
'where clause'
<Query completionStamp="1" virtualSchemaName="default" uniqueRows="1"
requestId="biomart-client">
<Dataset interface="default" name="dmelanogaster_gene_ensembl">
<Attribute name="pdb"/>
</Dataset>
</Query>
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Unknown column
'ensembl_mart_59
.dmelanogaster_gene_ensembl__ox_PDB__dm.translation_id_1068_key' in
'where clause' (drosophila_melanogaster/pdb)
Other similar queries work fine. E.g.:
<Query completionStamp="1" virtualSchemaName="default" uniqueRows="1"
requestId="biomart-client">
<Dataset interface="default" name="dmelanogaster_gene_ensembl">
<Attribute name="embl"/>
</Dataset>
</Query>
Similar errors arise if one attempts the same query through the web
interface. E.g., for MEROPS:
Serious Error: Error during query execution: Unknown column
'ensembl_mart_59
.dmelanogaster_gene_ensembl__ox_MEROPS__dm.translation_id_1068_key' in
'where clause'
ERROR: caught BioMart::Exception::Database: Error during query
execution: Unknown column
'ensembl_mart_59
.dmelanogaster_gene_ensembl__ox_MEROPS__dm.translation_id_1068_key' in
'where clause'
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Stacktrace:
Exception::Class::Base::throw /ensemblweb/wwwmart/www_59/biomart-perl/
lib/BioMart/Dataset/TableSet.pm:241
BioMart::Dataset::TableSet::_fillAttributeTableWith /ensemblweb/
wwwmart/www_59/biomart-perl/lib/BioMart/Dataset/TableSet.pm:124
BioMart::Dataset::TableSet::_getResultTable /ensemblweb/wwwmart/www_59/
biomart-perl/lib/BioMart/DatasetI.pm:1170
BioMart::DatasetI::getResultTable /ensemblweb/wwwmart/www_59/biomart-
perl/lib/BioMart/QueryRunner.pm:472
BioMart::QueryRunner::_processPath /ensemblweb/wwwmart/www_59/biomart-
perl/lib/BioMart/QueryRunner.pm:374
BioMart::QueryRunner::_getResultTable /ensemblweb/wwwmart/www_59/
biomart-perl/lib/BioMart/QueryRunner.pm:194
BioMart::QueryRunner::execute /ensemblweb/wwwmart/www_59/biomart-perl/
lib/BioMart/Web.pm:2461
(eval) /ensemblweb/wwwmart/www_59/biomart-perl/lib/BioMart/Web.pm:2213
BioMart::Web::handle_request /ensemblweb/wwwmart/www_59/biomart-perl/
cgi-bin/martview:100
(eval) /ensemblweb/wwwmart/www_59/biomart-perl/cgi-bin/martview:99
ModPerl
::ROOT
::ModPerl
::Registry
::ensemblweb_wwwmart_www_59_biomart_2dperl_cgi_2dbin_martview
::handler /localsw/ensembl_web/apache/lib/site_perl/5.8.8/x86_64-linux-
thread-multi/ModPerl/RegistryCooker.pm:204
(eval) /localsw/ensembl_web/apache/lib/site_perl/5.8.8/x86_64-linux-
thread-multi/ModPerl/RegistryCooker.pm:204
ModPerl::RegistryCooker::run /localsw/ensembl_web/apache/lib/site_perl/
5.8.8/x86_64-linux-thread-multi/ModPerl/RegistryCooker.pm:170
ModPerl::RegistryCooker::default_handler /localsw/ensembl_web/apache/
lib/site_perl/5.8.8/x86_64-linux-thread-multi/ModPerl/Registry.pm:31
ModPerl::Registry::handler -e:0
(eval) -e:0
Thanks!
Gabriel
=============================================================
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
