Class Bio::FlatFileIndex::Indexer::Parser::MaXMLSequenceParser
In: lib/bio/io/flatfile/indexer.rb
Parent: TemplateParser

Methods

new  

Constants

NAMESTYLE = NameSpaces.new( NameSpace.new( 'id', Proc.new { |x| x.entry_id } ), NameSpace.new( 'altid', Proc.new { |x| x.id_strings } ), NameSpace.new( 'gene_ontology', Proc.new { |x| x.annotations.get_all_by_qualifier('gene_ontology').collect { |y| y.anntext
PRIMARY = 'id'
SECONDARY = [ 'altid', 'gene_ontology', 'datasrc' ]

Public Class methods

new(pri_name = nil, sec_names = nil)

[Source]

     # File lib/bio/io/flatfile/indexer.rb, line 322
322:           def initialize(pri_name = nil, sec_names = nil)
323:             super()
324:             self.format = 'raw'
325:             self.dbclass = Bio::FANTOM::MaXML::Sequence
326:             self.set_primary_namespace((pri_name or PRIMARY))
327:             unless sec_names then
328:               sec_names = self.class::SECONDARY
329:             end
330:             self.add_secondary_namespaces(*sec_names)
331:           end

[Validate]