Bio::Chado::Schema::Pub::Pub

NAME

Bio::Chado::Schema::Pub::Pub

DESCRIPTION

A documented provenance artefact - publications, documents, personal communication.

NAME

Bio::Chado::Schema::Pub::Pub

ACCESSORS

pub_id

  data_type: 'integer'
  is_auto_increment: 1
  is_nullable: 0
  sequence: 'pub_pub_id_seq'

title

  data_type: 'text'
  is_nullable: 1

Descriptive general heading.

volumetitle

  data_type: 'text'
  is_nullable: 1

Title of part if one of a series.

volume

  data_type: 'varchar'
  is_nullable: 1
  size: 255

series_name

  data_type: 'varchar'
  is_nullable: 1
  size: 255

Full name of (journal) series.

issue

  data_type: 'varchar'
  is_nullable: 1
  size: 255

pyear

  data_type: 'varchar'
  is_nullable: 1
  size: 255

pages

  data_type: 'varchar'
  is_nullable: 1
  size: 255

Page number range[s], e.g. 457--459, viii + 664pp, lv--lvii.

miniref

  data_type: 'varchar'
  is_nullable: 1
  size: 255

uniquename

  data_type: 'text'
  is_nullable: 0

type_id

  data_type: 'integer'
  is_foreign_key: 1
  is_nullable: 0

The type of the publication (book, journal, poem, graffiti, etc). Uses pub cv.

is_obsolete

  data_type: 'boolean'
  default_value: false
  is_nullable: 1

publisher

  data_type: 'varchar'
  is_nullable: 1
  size: 255

pubplace

  data_type: 'varchar'
  is_nullable: 1
  size: 255

RELATIONS

cell_line_cvterms

Type: has_many

Related object: the Bio::Chado::Schema::CellLine::CellLineCvterm manpage

cell_line_features

Type: has_many

Related object: the Bio::Chado::Schema::CellLine::CellLineFeature manpage

cell_line_libraries

Type: has_many

Related object: the Bio::Chado::Schema::CellLine::CellLineLibrary manpage

cell_lineprop_pubs

Type: has_many

Related object: the Bio::Chado::Schema::CellLine::CellLinepropPub manpage

cell_line_pubs

Type: has_many

Related object: the Bio::Chado::Schema::CellLine::CellLinePub manpage

cell_line_synonyms

Type: has_many

Related object: the Bio::Chado::Schema::CellLine::CellLineSynonym manpage

expression_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Expression::ExpressionPub manpage

feature_cvterms

Type: has_many

Related object: the Bio::Chado::Schema::Sequence::FeatureCvterm manpage

feature_cvterm_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Sequence::FeatureCvtermPub manpage

feature_expressions

Type: has_many

Related object: the Bio::Chado::Schema::Expression::FeatureExpression manpage

featureloc_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Sequence::FeaturelocPub manpage

featuremap_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Map::FeaturemapPub manpage

featureprop_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Sequence::FeaturepropPub manpage

feature_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Sequence::FeaturePub manpage

feature_relationshipprop_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Sequence::FeatureRelationshippropPub manpage

feature_relationship_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Sequence::FeatureRelationshipPub manpage

feature_synonyms

Type: has_many

Related object: the Bio::Chado::Schema::Sequence::FeatureSynonym manpage

library_cvterms

Type: has_many

Related object: the Bio::Chado::Schema::Library::LibraryCvterm manpage

libraryprop_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Library::LibrarypropPub manpage

library_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Library::LibraryPub manpage

library_synonyms

Type: has_many

Related object: the Bio::Chado::Schema::Library::LibrarySynonym manpage

nd_experiment_pubs

Type: has_many

Related object: the Bio::Chado::Schema::NaturalDiversity::NdExperimentPub manpage

phendescs

Type: has_many

Related object: the Bio::Chado::Schema::Genetic::Phendesc manpage

phenotype_comparisons

Type: has_many

Related object: the Bio::Chado::Schema::Genetic::PhenotypeComparison manpage

phenotype_comparison_cvterms

Type: has_many

Related object: the Bio::Chado::Schema::Genetic::PhenotypeComparisonCvterm manpage

phenstatements

Type: has_many

Related object: the Bio::Chado::Schema::Genetic::Phenstatement manpage

phylonode_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Phylogeny::PhylonodePub manpage

phylotree_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Phylogeny::PhylotreePub manpage

project_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Project::ProjectPub manpage

protocols

Type: has_many

Related object: the Bio::Chado::Schema::Mage::Protocol manpage

type

Type: belongs_to

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

pubauthors

Type: has_many

Related object: the Bio::Chado::Schema::Pub::Pubauthor manpage

pub_dbxrefs

Type: has_many

Related object: the Bio::Chado::Schema::Pub::PubDbxref manpage

pubprops

Type: has_many

Related object: the Bio::Chado::Schema::Pub::Pubprop manpage

pub_relationship_objects

Type: has_many

Related object: the Bio::Chado::Schema::Pub::PubRelationship manpage

pub_relationship_subjects

Type: has_many

Related object: the Bio::Chado::Schema::Pub::PubRelationship manpage

stock_cvterms

Type: has_many

Related object: the Bio::Chado::Schema::Stock::StockCvterm manpage

stockprop_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Stock::StockpropPub manpage

stock_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Stock::StockPub manpage

stock_relationship_cvterms

Type: has_many

Related object: the Bio::Chado::Schema::Stock::StockRelationshipCvterm manpage

stock_relationship_pubs

Type: has_many

Related object: the Bio::Chado::Schema::Stock::StockRelationshipPub manpage

studies

Type: has_many

Related object: the Bio::Chado::Schema::Mage::Study manpage

create_pubprops

  Usage: $set->create_pubprops({ baz => 2, foo => 'bar' });
  Desc : convenience method to create pubprop properties using cvterms
          from the ontology with the given name
  Args : hashref of { propname => value, ...},
         options hashref as:
          {
            autocreate => 0,
               (optional) boolean, if passed, automatically create cv,
               cvterm, and dbxref rows if one cannot be found for the
               given pubprop name.  Default false.

            cv_name => cv.name to use for the given pubprops.
                       Defaults to 'pub_property',
            db_name => db.name to use for autocreated dbxrefs,
                       default 'null',
            dbxref_accession_prefix => optional, default
                                       'autocreated:',
            definitions => optional hashref of:
                { cvterm_name => definition,
                }
             to load into the cvterm table when autocreating cvterms

             rank => force numeric rank. Be careful not to pass ranks that already exist
                     for the property type. The function will die in such case.
             allow_duplicate_values => default false.
                If true, allow duplicate instances of the same cvterm
                and value in the properties of the pubprop.  Duplicate
                values will have different ranks.
                       }
               Ret  : hashref of { propname => new pubprop object }

AUTHOR

Robert Buels <rbuels@cpan.org>

COPYRIGHT AND LICENSE

This software is copyright (c) 2009 by Robert Buels.

This is free software; you can redistribute it and/or modify it under the same terms as the Perl 5 programming language system itself.

 Bio::Chado::Schema::Pub::Pub