LICENSE

Copyright [1999-2015] Wellcome Trust Sanger Institute and the EMBL-European Bioinformatics Institute Copyright [2016-2024] EMBL-European Bioinformatics Institute

Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at

     http://www.apache.org/licenses/LICENSE-2.0

Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.

CONTACT

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NAME

Bio::EnsEMBL::DBSQL::MetaContainer - Encapsulates all access to core database meta information

SYNOPSIS

  my $meta_container =
    $registry->get_adaptor( 'Human', 'Core', 'MetaContainer' );

  my @mapping_info =
    @{ $meta_container->list_value_by_key('assembly.mapping') };
  
  my $scientific_name = $meta_container->get_scientific_name();

DESCRIPTION

  An object that encapsulates specific access to core db meta data

METHODS

get_production_name

  Args          : none
  Example       : $species = $meta_container->get_production_name();
  Description   : Obtains the name of the species in a form usable as, for
                  example, a table name, file name etc.
  Returntype    : string
  Exceptions    : none
  Status        : Stable

get_display_name

  Args          : none
  Example       : $species = $meta_container->get_display_name();
  Description   : Obtains the name of the species in a form usable as, for
                  example, a short label in a GUI.
  Returntype    : string
  Exceptions    : none
  Status        : Stable

get_common_name

  Args          : none
  Example       : $species = $meta_container->get_common_name();
  Description   : Obtains the common name of the species.
  Returntype    : string
  Exceptions    : none
  Status        : Stable

get_scientific_name

  Args          : none
  Example       : $species = $meta_container->get_scientific_name();
  Description   : Obtains the full scientific name of the species.
  Returntype    : string
  Exceptions    : none
  Status        : Stable

get_division

  Args          : none
  Example       : $div = $meta_container->get_division();
  Description   : Obtains the Ensembl Genomes division to which the species belongs.
  Returntype    : string
  Exceptions    : none
  Status        : Stable

get_taxonomy_id

  Arg [1]    : none
  Example    : $tax_id = $meta_container->get_taxonomy_id();
  Description: Retrieves the taxonomy id from the database meta table
  Returntype : string
  Exceptions : none
  Caller     : ?
  Status     : Stable

get_genebuild

  Arg [1]    : none
  Example    : $tax_id = $meta_container->get_genebuild();
  Description: Retrieves the genebuild from the database meta table
  Returntype : string
  Exceptions : none
  Caller     : ?
  Status     : Stable

get_genebuild

  Example    : $classification = $meta_container->get_classification();
  Description: Retrieves the classification held in the backing database minus
               any species specific levels. This means that the first element
               in the array will be subfamily/family level ascending to
               superkingdom
  Returntype : ArrayRef[String]
  Exceptions : none
  Caller     : ?
  Status     : Stable