Bio::EnsEMBL::DBSQL::AttributeAdaptor Class Reference

Inheritance diagram for Bio::EnsEMBL::DBSQL::AttributeAdaptor:

Public Member Functions
public Bio::EnsEMBL::AttributeAdaptor	new ()
public	store_batch_on_Object ()
protected	_store_batch_rows ()
public	store_batch_on_MiscAttrib ()
public	store_batch_on_Slice ()
public	store_batch_on_Gene ()
public	store_batch_on_Transcript ()
public	store_batch_on_Translation ()
public	store_batch_on_DnaDnaAlignFeature ()
public	store_on_Object ()
public	store_on_MiscFeature ()
public	store_on_Slice ()
public	store_on_Gene ()
public	store_on_Transcript ()
public	store_on_RNAProduct ()
public	store_on_Translation ()
public	store_on_DnaDnaAlignFeature ()
public	remove_from_Object ()
public	remove_from_MiscFeature ()
public	remove_from_Slice ()
public	remove_from_Gene ()
public	remove_from_Transcript ()
public	remove_from_RNAProduct ()
public	remove_from_Translation ()
public	remove_from_DnaDnaAlignFeature ()
public	fetch_all ()
public	fetch_by_code ()
public	fetch_all_by_Object ()
public	fetch_all_by_MiscFeature ()
public	fetch_all_by_Slice ()
public	fetch_all_by_Gene ()
public	fetch_all_by_Transcript ()
public	fetch_all_by_Translation ()
public	fetch_all_by_RNAProduct ()
public	fetch_all_by_DnaDnaAlignFeature ()
protected	_id_check ()
protected	_store_type ()
protected	_obj_from_sth ()
Public Member Functions inherited from Bio::EnsEMBL::DBSQL::BaseAdaptor
public Bio::EnsEMBL::DBSQL::BaseAdaptor	new ()
public DBI::StatementHandle	prepare ()
public Bio::EnsEMBL::DBSQL::DBAdaptor	db ()
public Bio::EnsEMBL::DBSQL::DBConnection	dbc ()
public Boolean	is_multispecies ()
public Int	species_id ()
protected	_list_dbIDs ()
protected	_straight_join ()
protected	_can_straight_join ()
public Listref	bind_param_generic_fetch ()
protected	_bind_param_generic_fetch ()
public String	generate_in_constraint ()
public Listref	generic_fetch ()
public Int	generic_count ()
protected	_generate_sql ()
public Bio::EnsEMBL::Feature	fetch_by_dbID ()
protected	_uncached_fetch_by_dbID ()
public Listref	fetch_all_by_dbID_list ()
protected	_uncached_fetch_all_by_dbID_list ()
protected ArrayRef	_uncached_fetch_all_by_id_list ()
public	fetch_all ()
public Scalar	last_insert_id ()
public	insert_ignore_clause ()
protected Bio::EnsEMBL::DBSQL::Support::BaseCache	_id_cache ()
protected Boolean	_no_id_cache ()
public Boolean	ignore_cache_override ()
public Int	schema_version ()
protected	_tables ()
protected	_columns ()
protected	_default_where_clause ()
protected	_left_join ()
protected	_final_clause ()
protected	_objs_from_sth ()
protected	_build_id_cache ()
protected	_logic_name_to_constraint ()

Detailed Description

Synopsis

# $db is a Bio::EnsEMBL::DBSQL::DBAdaptor object:
$attribute_adaptor = $db->get_AttributeAdaptor();
 
$attributes = $attribute_adaptor->fetch_all_by_MiscFeature($feature);
 
$attributes = $attribute_adaptor->fetch_all_by_Slice($slice);
 
$attribute_adaptor->store_on_Slice( $slice, \@attributes );
 
$attribute_adaptor->store_on_MiscFeature( $misc_feature,
  \@attributes )

Description

Definition at line 27 of file AttributeAdaptor.pm.

Member Function Documentation

_id_check()

protected Bio::EnsEMBL::DBSQL::AttributeAdaptor::_id_check

(

)

Undocumented method

Code:

_obj_from_sth()

protected Bio::EnsEMBL::DBSQL::AttributeAdaptor::_obj_from_sth

(

)

Undocumented method

Code:

_store_batch_rows()

protected Bio::EnsEMBL::DBSQL::AttributeAdaptor::_store_batch_rows

(

)

Undocumented method

Code:

_store_type()

protected Bio::EnsEMBL::DBSQL::AttributeAdaptor::_store_type

(

)

Undocumented method

Code:

fetch_all()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::fetch_all

(

)

Undocumented method

Code:

fetch_all_by_DnaDnaAlignFeature()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::fetch_all_by_DnaDnaAlignFeature

(

)

Undocumented method

Code:

fetch_all_by_Gene()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::fetch_all_by_Gene

(

)

Undocumented method

Code:

fetch_all_by_MiscFeature()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::fetch_all_by_MiscFeature

(

)

Undocumented method

Code:

fetch_all_by_Object()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::fetch_all_by_Object

(

)

Undocumented method

Code:

fetch_all_by_RNAProduct()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::fetch_all_by_RNAProduct

(

)

Undocumented method

Code:

fetch_all_by_Slice()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::fetch_all_by_Slice

(

)

Undocumented method

Code:

fetch_all_by_Transcript()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::fetch_all_by_Transcript

(

)

Undocumented method

Code:

fetch_all_by_Translation()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::fetch_all_by_Translation

(

)

Undocumented method

Code:

fetch_by_code()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::fetch_by_code

(

)

Undocumented method

Code:

new()

public Bio::EnsEMBL::AttributeAdaptor Bio::EnsEMBL::DBSQL::AttributeAdaptor::new

(

)

  Arg [...]  : Superclass args.  See Bio::EnsEMBL::DBSQL::BaseAdaptor
  Description: Instantiates a Bio::EnsEMBL::DBSQL::AttributeAdaptor
  Returntype : Bio::EnsEMBL::AttributeAdaptor
  Exceptions : none
  Caller     : DBAdaptor
  Status     : Stable

Code:

remove_from_DnaDnaAlignFeature()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::remove_from_DnaDnaAlignFeature

(

)

Undocumented method

Code:

remove_from_Gene()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::remove_from_Gene

(

)

Undocumented method

Code:

remove_from_MiscFeature()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::remove_from_MiscFeature

(

)

Undocumented method

Code:

remove_from_Object()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::remove_from_Object

(

)

Undocumented method

Code:

remove_from_RNAProduct()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::remove_from_RNAProduct

(

)

Undocumented method

Code:

remove_from_Slice()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::remove_from_Slice

(

)

Undocumented method

Code:

remove_from_Transcript()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::remove_from_Transcript

(

)

Undocumented method

Code:

remove_from_Translation()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::remove_from_Translation

(

)

Undocumented method

Code:

store_batch_on_DnaDnaAlignFeature()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_batch_on_DnaDnaAlignFeature

(

)

Undocumented method

Code:

store_batch_on_Gene()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_batch_on_Gene

(

)

Undocumented method

Code:

store_batch_on_MiscAttrib()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_batch_on_MiscAttrib

(

)

Undocumented method

Code:

store_batch_on_Object()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_batch_on_Object

(

)

Undocumented method

Code:

store_batch_on_Slice()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_batch_on_Slice

(

)

Undocumented method

Code:

store_batch_on_Transcript()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_batch_on_Transcript

(

)

Undocumented method

Code:

store_batch_on_Translation()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_batch_on_Translation

(

)

Undocumented method

Code:

store_on_DnaDnaAlignFeature()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_on_DnaDnaAlignFeature

(

)

Undocumented method

Code:

store_on_Gene()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_on_Gene

(

)

Undocumented method

Code:

store_on_MiscFeature()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_on_MiscFeature

(

)

Undocumented method

Code:

store_on_Object()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_on_Object

(

)

Undocumented method

Code:

store_on_RNAProduct()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_on_RNAProduct

(

)

Undocumented method

Code:

store_on_Slice()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_on_Slice

(

)

Undocumented method

Code:

store_on_Transcript()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_on_Transcript

(

)

Undocumented method

Code:

store_on_Translation()

public Bio::EnsEMBL::DBSQL::AttributeAdaptor::store_on_Translation

(

)

Undocumented method

Code:

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The documentation for this class was generated from the following file:

• ensembl/modules/Bio/EnsEMBL/DBSQL/AttributeAdaptor.pm