INSDC structured comment parser

parse_st.rb

#!/usr/bin/env ruby

require 'rubygems'
require 'bio'

def parse_st_comment comment
    tagset_id = nil 
    tag_name = tag_value = ''
    st = Hash.new { |h,k| h[k] = {} }
    comment.split("\n").each do |line|
        ##Genome-Assembly-Data-START##
        if match =  line.match(/##(.+)-START##/)
           tagset_id = match[1] 
           next
        elsif match = line.match(/##(.+)-END##/)
            if tagset_id == match[1]
              tagset_id = nil 
            end 
        elsif match = line.match(/^(.+[^ ])\s+:: (.+)/)
            tag_name = match[1]
            tag_value = match[2]
            st[tagset_id][tag_name]= tag_value
        elsif tagset_id
            value = "#{st[tagset_id][tag_name]} #{line.strip}"
            st[tagset_id][tag_name] = value
        end 
        #puts line
    end 
    st  
end

    io = ARGF
    Bio::FlatFile.auto(io).each do |entry|
      #puts entry.comment
      st = parse_st_comment entry.comment
      st.each do |k,v|
          v.each do |vk,vv|
             puts "#{entry.entry_id}.#{entry.version}\t#{k}\t#{vk}\t#{vv}"
          end 
      end 
      #@entry = entry
      #@features = entry.features
      #@source = @features.shift
      #parse_sequence
      #parse_source
      #parse_genes
      #parse_features
    end