[ensembl-dev] Is Aspergillus_fumigatus not a valid species ?

Dan Staines dstaines at ebi.ac.uk
Wed Jul 4 14:21:08 BST 2012

Hi Gang Chen,

This seems to work just fine for me using the public mysql server:
use warnings;
use strict;
use Bio::EnsEMBL::Registry;

my $registry = "Bio::EnsEMBL::Registry";
       -host    => 'mysql.ebi.ac.uk',
       -user    => 'anonymous',
       -port => 4157,
       -verbose => '1'
my $gene_adaptor = $registry->get_adaptor('aspergillus_fumigatus', 
'Core', 'gene' );
for my $gene (@{$gene_adaptor->fetch_all()}) {
     print $gene->stable_id()."\n";

How are you building your registry?



Dan Staines, PhD               Ensembl Genomes Technical Coordinator
EMBL-EBI                       Tel: +44-(0)1223-492507
Wellcome Trust Genome Campus   Fax: +44-(0)1223-494468
Cambridge CB10 1SD, UK         http://www.ensemblgenomes.org/

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