#!/usr/bin/perl

use strict;
use Bio::EnsEMBL::Utils::ConfigRegistry;
use Bio::EnsEMBL::DBSQL::DBAdaptor;
use Bio::EnsEMBL::Compara::DBSQL::DBAdaptor;

my @aliases;

#------------------------------------------------
new Bio::EnsEMBL::DBSQL::DBAdaptor(-host => 'ensembldb.ensembl.org',
                                   -user => 'anonymous',
                                   -port => 3306,
                                   -species => 'Homo sapiens',
                                   -group => 'core',
                                   -dbname => 'homo_sapiens_core_39_36a');

@aliases = ('H_Sapiens', 'homo sapiens', 'Homo sapiens','Homo_Sapiens','Homo_sapiens', 'Homo', 'homo', 'human');

Bio::EnsEMBL::Utils::ConfigRegistry->add_alias(-species => "Homo sapiens",
                                               -alias => \@aliases);

#------------------------------------------------
new Bio::EnsEMBL::DBSQL::DBAdaptor(-host => 'ensembldb.ensembl.org',
                                   -user => 'anonymous',
                                   -port => 3306,
                                   -species => 'Mus musculus',
                                   -group => 'core',
                                   -dbname => 'mus_musculus_core_39_36');

@aliases = ('M_Musculus', 'mus musculus','Mus musculus', 'Mus_Musculus','Mus_musculus', 'Mus', 'mus', 'mouse');

Bio::EnsEMBL::Utils::ConfigRegistry->add_alias(-species => "Mus musculus",
                                               -alias => \@aliases);

#------------------------------------------------
new Bio::EnsEMBL::DBSQL::DBAdaptor(-host => 'ensembldb.ensembl.org',
                                   -user => 'anonymous',
                                   -port => 3306,
                                   -species => 'Rattus norvegicus',
                                   -group => 'core',
                                   -dbname => 'rattus_norvegicus_core_39_34i');

@aliases = ('R_norvegicus', 'rattus norvegicus', 'Rattus_Norvegicus','Rattus_norvegicus', 'Rat', 'rat', 'rattus');

Bio::EnsEMBL::Utils::ConfigRegistry->add_alias(-species => "Mus musculus",
                                               -alias => \@aliases);

#------------------------------------------------
new Bio::EnsEMBL::DBSQL::DBAdaptor(-host => 'ensembldb.ensembl.org',
                                   -user => 'anonymous',
                                   -port => 3306,
                                   -species => 'Takifugu rubripes',
                                   -group => 'core',
                                   -dbname => 'takifugu_rubripes_core_39_4b');

@aliases = ('F_Rubripes', 'fugu rubripes', 'Fugu_Rubripes','Fugu_rubripes', 'Fugu', 'fugu');

Bio::EnsEMBL::Utils::ConfigRegistry->add_alias(-species => "Fugu rubripes",
                                               -alias => \@aliases);

#------------------------------------------------

new Bio::EnsEMBL::DBSQL::DBAdaptor(-host => 'ensembldb.ensembl.org',
                                   -user => 'anonymous',
                                   -port => 3306,
                                   -species => 'Pan troglodytes',
                                   -group => 'core',
                                   -dbname => 'pan_troglodytes_core_39_3c');

@aliases = ('P_troglodytes', 'pan troglodytes', 'pan troglodytes','Pan_troglodytes', 'Pan', 'pan');

Bio::EnsEMBL::Utils::ConfigRegistry->add_alias(-species => "Pan troglodytes",
                                               -alias => \@aliases);

#------------------------------------------------
new Bio::EnsEMBL::DBSQL::DBAdaptor(-host => 'ensembldb.ensembl.org',
                                   -user => 'anonymous',
                                   -port => 3306,
                                   -species => 'Macaca mulatta',
                                   -group => 'core',
                                   -dbname => 'macaca_mulatta_core_39_1c');

@aliases = ('M_mulatta', 'macaca mulatta', 'Macaca mulatta','Macaca_mulatta', 'Macaca', 'macaca');

Bio::EnsEMBL::Utils::ConfigRegistry->add_alias(-species => "Macaca mulatta",
                                               -alias => \@aliases);

#------------------------------------------------

new Bio::EnsEMBL::Compara::DBSQL::DBAdaptor(-host => 'ensembldb.ensembl.org',
                                            -user => 'anonymous',
                                            -port => 3306,
                                            -species => 'Compara39',
                                            -dbname => 'ensembl_compara_39');

@aliases = ('ensembl_compara_39', 'compara39', 'compara');

Bio::EnsEMBL::Utils::ConfigRegistry->add_alias(-species => "Compara39",
                                               -alias => \@aliases);

1;