Method: Bio::EMBLDB::Common#references

Defined in:
lib/bio/db/embl/common.rb

#references ⇒ Object

returns Bio::Reference object from Bio::EMBLDB::Common#ref.

  • Bio::EMBLDB::Common#ref -> Bio::References



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# File 'lib/bio/db/embl/common.rb', line 271

def references
  unless @data['references']
    ary = self.ref.map {|ent|
      hash = Hash.new
      ent.each {|key, value|
        case key
        when 'RN'
          if /\[(\d+)\]/ =~ value.to_s
            hash['embl_gb_record_number'] = $1.to_i
          end
        when 'RC'
          unless value.to_s.strip.empty?
            hash['comments'] ||= []
            hash['comments'].push value
          end
        when 'RP'
          hash['sequence_position'] = value
        when 'RA'
          a = value.split(/\, /)
          a.each do |x|
            x.sub!(/( [^ ]+)\z/, ",\\1")
          end
          hash['authors'] = a
        when 'RT'
          hash['title'] = value
        when 'RL'
          if /(.*) (\d+) *(\(([^\)]+)\))?(\, |\:)([a-zA-Z\d]+\-[a-zA-Z\d]+) *\((\d+)\)\.?\z/ =~ value.to_s
            hash['journal'] = $1.rstrip
            hash['volume']  = $2
            hash['issue']   = $4
            hash['pages']   = $6
            hash['year']    = $7
          else
            hash['journal'] = value
          end
        when 'RX'  # PUBMED, DOI, (AGRICOLA)
          value.split(/\. /).each {|item|
            tag, xref = item.split(/\; /).map {|i| i.strip.sub(/\.\z/, '') }
            hash[ tag.downcase ]  = xref
          }
        end
      }
      Reference.new(hash)
    }
    @data['references'] = ary.extend(Bio::References::BackwardCompatibility)
  end
  @data['references']
end