Class: Bio::PhyloXML::DomainArchitecture

Inherits:
Object
  • Object
show all
Defined in:
lib/bio/phyloxml/elements.rb

Overview

Description

This is used describe the domain architecture of a protein. Attribute ‘length’ is the total length of the protein

Instance Attribute Summary collapse

Instance Method Summary collapse

Constructor Details

#initialize ⇒ DomainArchitecture

Returns a new instance of DomainArchitecture.



843
844
845
 
# File 'lib/bio/phyloxml/elements.rb', line 843

def initialize
  @domains = []
end

Instance Attribute Details

#domains ⇒ Object (readonly)

Array of ProteinDomain objects.



837
838
839
 
# File 'lib/bio/phyloxml/elements.rb', line 837

def domains
  @domains
end

#length ⇒ Object

Integer. Total length of the protein



834
835
836
 
# File 'lib/bio/phyloxml/elements.rb', line 834

def length
  @length
end

Instance Method Details

#to_xml ⇒ Object

Converts elements to xml representation. Called by PhyloXML::Writer class.



848
849
850
851
852
853
854
 
# File 'lib/bio/phyloxml/elements.rb', line 848

def to_xml
  xml_node = LibXML::XML::Node.new('domain_architecture')
  PhyloXML::Writer.generate_xml(xml_node, self,[
        [:attr, 'length'],
        [:objarr, 'domain', 'domains']])
  return xml_node
end