Bio::Chado::Schema::Cv::CvtermDbxref - Bio::Chado::Schema::Cv::CvtermDbxref documentation

Bio-Chado-Schema documentation Contained in the Bio-Chado-Schema distribution.

Index

Code Index:

NAME

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Bio::Chado::Schema::Cv::CvtermDbxref

DESCRIPTION

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In addition to the primary identifier (cvterm.dbxref_id) a cvterm can have zero or more secondary identifiers/dbxrefs, which may refer to records in external databases. The exact semantics of cvterm_dbxref are not fixed. For example: the dbxref could be a pubmed ID that is pertinent to the cvterm, or it could be an equivalent or similar term in another ontology. For example, GO cvterms are typically linked to InterPro IDs, even though the nature of the relationship between them is largely one of statistical association. The dbxref may be have data records attached in the same database instance, or it could be a "hanging" dbxref pointing to some external database. NOTE: If the desired objective is to link two cvterms together, and the nature of the relation is known and holds for all instances of the subject cvterm then consider instead using cvterm_relationship together with a well-defined relation.

ACCESSORS

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cvterm_dbxref_id

  data_type: integer
  default_value: nextval('cvterm_dbxref_cvterm_dbxref_id_seq'::regclass)
  is_auto_increment: 1
  is_nullable: 0

cvterm_id

  data_type: integer
  default_value: undef
  is_foreign_key: 1
  is_nullable: 0

dbxref_id

  data_type: integer
  default_value: undef
  is_foreign_key: 1
  is_nullable: 0

is_for_definition

  data_type: integer
  default_value: 0
  is_nullable: 0

A cvterm.definition should be supported by one or more references. If this column is true, the dbxref is not for a term in an external database - it is a dbxref for provenance information for the definition.

RELATIONS

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dbxref

Type: belongs_to

Related object: Bio::Chado::Schema::General::Dbxref

cvterm

Type: belongs_to

Related object: Bio::Chado::Schema::Cv::Cvterm

Bio-Chado-Schema documentation Contained in the Bio-Chado-Schema distribution. 
package Bio::Chado::Schema::Cv::CvtermDbxref;

# Created by DBIx::Class::Schema::Loader
# DO NOT MODIFY THE FIRST PART OF THIS FILE

use strict;
use warnings;

use base 'DBIx::Class::Core';



__PACKAGE__->table("cvterm_dbxref");


__PACKAGE__->add_columns(
  "cvterm_dbxref_id",
  {
    data_type         => "integer",
    default_value     => \"nextval('cvterm_dbxref_cvterm_dbxref_id_seq'::regclass)",
    is_auto_increment => 1,
    is_nullable       => 0,
  },
  "cvterm_id",
  {
    data_type      => "integer",
    default_value  => undef,
    is_foreign_key => 1,
    is_nullable    => 0,
  },
  "dbxref_id",
  {
    data_type      => "integer",
    default_value  => undef,
    is_foreign_key => 1,
    is_nullable    => 0,
  },
  "is_for_definition",
  { data_type => "integer", default_value => 0, is_nullable => 0 },
);
__PACKAGE__->set_primary_key("cvterm_dbxref_id");
__PACKAGE__->add_unique_constraint("cvterm_dbxref_c1", ["cvterm_id", "dbxref_id"]);


__PACKAGE__->belongs_to(
  "dbxref",
  "Bio::Chado::Schema::General::Dbxref",
  { dbxref_id => "dbxref_id" },
  { cascade_copy => 0, cascade_delete => 0 },
);


__PACKAGE__->belongs_to(
  "cvterm",
  "Bio::Chado::Schema::Cv::Cvterm",
  { cvterm_id => "cvterm_id" },
  { cascade_copy => 0, cascade_delete => 0 },
);


# Created by DBIx::Class::Schema::Loader v0.05002 @ 2010-02-18 11:30:28
# DO NOT MODIFY THIS OR ANYTHING ABOVE! md5sum:409lMIKlZkLaIGV08o+MWQ


# You can replace this text with custom content, and it will be preserved on regeneration
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