Method: Bio::DAS#get_types

Defined in:
lib/bio/io/das.rb

#get_types(dsn, segments = []) ⇒ Object

Returns a Bio::DAS::TYPES object. The ‘dsn’ can be a String or a Bio::DAS::DSN object. The ‘segments’ is optional and can be a Bio::DAS::SEGMENT object or an Array of Bio::DAS::SEGMENT



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# File 'lib/bio/io/das.rb', line 173

def get_types(dsn, segments = [])	# argument 'type' is deprecated
  types = TYPES.new

  dsn = dsn.source if dsn.instance_of?(DSN)
  segments = [segments] if segments.instance_of?(SEGMENT)

  opts = []
  segments.each do |s|
    opts << "segment=#{s.entry_id}:#{s.start},#{s.stop}"
  end

  result = Bio::Command.post_form("#{@server}/das/#{dsn}/types", opts)
  doc = REXML::Document.new(result.body)
  doc.elements.each('/descendant::GFF') do |e|
    types.version = e.attributes['version']
    types.href = e.attributes['href']
    e.elements.each do |e|
      segment = SEGMENT.new
      segment.entry_id = e.attributes['id']
      segment.start = e.attributes['start']
      segment.stop = e.attributes['stop']
      segment.version = e.attributes['version']
      segment.label = e.attributes['label']
      e.elements.each do |e|
        t = TYPE.new
        t.entry_id = e.attributes['id']
        t.method = e.attributes['method']
        t.category = e.attributes['category']
        t.count = e.text.to_i
        segment.types << t
      end
      types.segments << segment
    end
  end
  types
end