# metadata_db is an instance of MetaDataDBAdaptor my $adaptor = $metadata_db->get_DataReleaseInfoAdaptor(); # find the latest e! release my $release = $adaptor->fetch_current_ensembl_release(); # find associated databases $adaptor->fetch_databases($release);
Adaptor for storing and retrieving DataRelease objects from MySQL genome_info database
Bio::EnsEMBL::MetaData::DataReleaseInfo Bio::EnsEMBL::MetaData::DatabaseInfo Bio::EnsEMBL::MetaData::GenomeInfo
Definition at line 30 of file DataReleaseInfoAdaptor.pm.
protected String Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor::_args_to_sql | ( | ) | [inherited] |
Description: Add where clauses to SQL given arguments Arg : String - Base SQL Arg : Hashref - arguments Returntype : String Exceptions : none Caller : internal Status : Stable
Reimplemented in Bio::EnsEMBL::MetaData::DBSQL::GenomeComparaInfoAdaptor, and Bio::EnsEMBL::MetaData::DBSQL::GenomeInfoAdaptor.
protected void Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor::_cache | ( | ) | [inherited] |
Arg : type of object for cache Description: Return internal cache for given type Returntype : none Exceptions : none Caller : internal Status : Stable
protected void Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor::_clear_cache | ( | ) | [inherited] |
Arg : (optional) type of object to clear Description: Clear internal cache (optionally just one type) Returntype : none Exceptions : none Caller : internal Status : Stable
protected Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::_fetch_children | ( | ) |
Undocumented method
Reimplemented from Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor.
protected void Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::_fetch_databases | ( | ) |
Arg : Bio::EnsEMBL::MetaData::DataReleaseInfo Description: Add databases to supplied object Returntype : none Exceptions : none Caller : internal Status : Stable
protected Arrayref Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor::_fetch_generic | ( | ) | [inherited] |
Arg : SQL to use to fetch object Arg : arrayref of bind parameters Arg : (optional) if set to 1, all children will be fetched Description: Instantiate a GenomeInfo from the database using the specified SQL Returntype : Arrayref of Bio::EnsEMBL::MetaData::GenomeInfo Exceptions : none Caller : internal Status : Stable
protected Arrayref Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor::_fetch_generic_with_args | ( | ) | [inherited] |
Arg : hashref of arguments by column Arg : (optional) if set to 1, all children will be fetched Description: Instantiate a GenomeInfo from the database using a generic method, with the supplied arguments Returntype : Arrayref of Bio::EnsEMBL::MetaData::GenomeInfo Exceptions : none Caller : internal Status : Stable
protected Arrayref Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor::_first_element | ( | ) | [inherited] |
Arg : arrayref Description: Utility method to return the first element in a list, undef if empty Returntype : arrayref element Exceptions : none Caller : internal Status : Stable
protected Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::_get_base_sql | ( | ) |
Undocumented method
Reimplemented from Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor.
protected Object Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor::_get_cached_obj | ( | ) | [inherited] |
Arg : type of object to retrieve Arg : ID of object to retrieve Description: Retrieve object from internal cache Returntype : object Exceptions : none Caller : internal Status : Stable
protected void Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor::_get_division_id | ( | ) | [inherited] |
Arg : division name Description: Return ID for division, storing if required Returntype : none Exceptions : none Caller : internal Status : Stable
protected Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::_get_id_field | ( | ) |
Undocumented method
Reimplemented from Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor.
protected Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::_get_obj_class | ( | ) |
Undocumented method
Reimplemented from Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor.
protected void Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor::_store_cached_obj | ( | ) | [inherited] |
Arg : type of object to store Arg : object to store Description: Store object in internal cache Returntype : none Exceptions : none Caller : internal Status : Stable
protected void Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::_store_databases | ( | ) |
Arg : Bio::EnsEMBL::MetaData::DataReleaseInfo Description: Store databases from supplied object Returntype : none Exceptions : none Caller : internal Status : Stable
public Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor::fetch_all | ( | ) | [inherited] |
Undocumented method
public Bio::EnsEMBL::MetaData::GenomeInfo Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor::fetch_by_dbID | ( | ) | [inherited] |
Arg : ID of genome info Arg : (optional) if 1, expand children of genome info Description: Fetch genome info for specified ID Returntype : Bio::EnsEMBL::MetaData::GenomeInfo Exceptions : none Caller : internal Status : Stable
public Bio::EnsEMBL::MetaData::GenomeInfo Bio::EnsEMBL::MetaData::DBSQL::BaseInfoAdaptor::fetch_by_dbIDs | ( | ) | [inherited] |
Arg : IDs of genome info Arg : (optional) if 1, expand children of genome info Description: Fetch genome info for specified ID Returntype : Bio::EnsEMBL::MetaData::GenomeInfo Exceptions : none Caller : internal Status : Stable
public Bio::EnsEMBL::MetaData::DataReleaseInfo Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::fetch_by_ensembl_genomes_release | ( | ) |
Arg : String - Ensembl Genomes Release Description: Retrieve details for the specified Ensembl Genomes release Returntype : Bio::EnsEMBL::MetaData::DataReleaseInfo Exceptions : none Caller : general Status : Stable
public Bio::EnsEMBL::MetaData::DataReleaseInfo Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::fetch_by_ensembl_release | ( | ) |
Arg : String - Ensembl Release Description: Retrieve details for the specified Ensembl release Returntype : Bio::EnsEMBL::MetaData::DataReleaseInfo Exceptions : none Caller : general Status : Stable
public Bio::EnsEMBL::MetaData::DataReleaseInfo Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::fetch_current_ensembl_genomes_release | ( | ) |
Description: Retrieve details for the current Ensembl Genomes release Returntype : Bio::EnsEMBL::MetaData::DataReleaseInfo Exceptions : none Caller : general Status : Stable
public Bio::EnsEMBL::MetaData::DataReleaseInfo Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::fetch_current_ensembl_release | ( | ) |
Description: Retrieve details for the current Ensembl release Returntype : Bio::EnsEMBL::MetaData::DataReleaseInfo Exceptions : none Caller : general Status : Stable
public Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::fetch_databases | ( | ) |
Undocumented method
public Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::store | ( | ) |
Undocumented method
public void Bio::EnsEMBL::MetaData::DBSQL::DataReleaseInfoAdaptor::update | ( | ) |
Arg : Bio::EnsEMBL::MetaData::DatabaseInfo Description: Update the supplied object (must be previously stored) Returntype : none Exceptions : none Caller : general Status : Stable