[BioRuby] db/embl/embl.rb

[Michael Han]

Hi,

I think the bioruby embl parser is slightly broken with the last EMBL  
format.
I did some changes to the embl.rb that should fix it.

Could someone have a look at the changes?

thanks,

Michael

---------------------- db/embl/embl.rb ----------
# added the new fields to the id_line parser
def id_line(key=nil)
     unless @data['ID']
       tmp = Hash.new
       idline = fetch('ID').split(/; +/)
       tmp['ENTRY_NAME'], tmp['DATA_CLASS'] = idline[0].split(/ +/)
       tmp['SEQUENCE_VERSION'] = idline[1]
       tmp['MOLECULE_CLASS'] = idline[2]
       tmp['MOLECULE_TYPE'] = idline[3]
       tmp['DIVISION'] = idline[4]
       tmp['SEQUENCE_LENGTH'] = idline[5].strip.split(' ').first.to_i

       @data['ID'] = tmp
     end

     if key
       @data['ID'][key]
     else
       @data['ID']
     end
end

# and for the sequence version
def sv
     id_line('SEQUENCE_VERSION')
   end
def version
     sv.split(" ")[1].to_i
end