On 26 Jul 2007, at 13:55, Michele Muggiri wrote:
Hi, i try to install biomart-perl and all is ok, bat when i try to
use the registry downloaded from
http://www.biomart.org/biomart/martservice?type=registry with the
command
"# perl bin/configure.pl -r conf/registry.xml"
hi return me this message:
"
ERROR something wrong with your registry: Dataset
'gaculeatus_gene_ensembl' is duplicated in virtualSchema
'BioMart::Configuration::VirtualSchema=HASH(0x9992840)-
>name' Please rename datasets in meta_conf tables or
separate conflicting datasets into different virtual
schemas in defaultMartRegistry.xml
Trace begun at
/usr/local/biomart-perl/bin/../lib/BioMart/Initializer.pm line
1150BioMart::Initializer::_populateRegistry('BioMart::
Initializer=HASH(0x98fdb10)') called at
/usr/local/biomart-perl/bin/../lib/BioMart/Initializer.pm line
244BioMart::Initializer::_init('BioMart::Initializer=HASH(0x98fdb10)',
'registryFile', '/usr/local/biomart-perl/conf/registry.xml', 'action',
'cached', 'mode', 'memory') called at
/usr/local/biomart-perl/bin/../lib/BioMart/Initializer.pm line
393BioMart::Initializer::init_clean('BioMart::
Initializer=HASH(0x98fdb10)', 'registryFile',
'/usr/local/biomart-perl/conf/registry.xml', 'action', 'cached',
'mode', 'memory') called at
/usr/local/biomart-perl/bin/../lib/BioMart/Initializer.pm line
344BioMart::Initializer::init_cached('BioMart::
Initializer=HASH(0x98fdb10)', 'registryFile',
'/usr/local/biomart-perl/conf/registry.xml', 'action', 'cached',
'mode', 'memory') called at
/usr/local/biomart-perl/bin/../lib/BioMart/Initializer.pm line
184BioMart::Initializer::_new('BioMart::Initializer=HASH(0x98fdb10)',
'registryFile', '/usr/local/biomart-perl/conf/registry.xml', 'action',
'cached', 'mode', 'memory') called at
/usr/local/biomart-perl/bin/../lib/BioMart/RootI.pm line
42BioMart::RootI::new('BioMart::Initializer', 'registryFile',
'/usr/local/biomart-perl/conf/registry.xml', 'action', 'cached',
'mode', 'memory') called at
/usr/local/biomart-perl/bin/configureBioMart.pl line 302eval {...} at
/usr/local/biomart-perl/bin/configureBioMart.pl line 301 "
you can help me?
Hi Michele,
try to separate expression database into a separate virtual schema.
This will prevent the duplication error
a.
------------------------------------------------------------------------
-------
Arek Kasprzyk
EMBL-European Bioinformatics Institute.
Wellcome Trust Genome Campus, Hinxton,
Cambridge CB10 1SD, UK.
Tel: +44-(0)1223-494606
Fax: +44-(0)1223-494468
------------------------------------------------------------------------
-------
