-casts = []
-casts << {:long=>'cutoff', :short=>'c', :type=>'int', :mandatory=>false, :default=>20, :allowed=>nil, :disallowed=>nil}
-casts << {:long=>'base', :short=>'b', :type=>'uint', :mandatory=>false, :default=>64, :allowed=>"33,59,64", :disallowed=>nil}
-
-bp = Biopieces.new
-
-options = bp.parse(ARGV, casts)
-
-bp.each_record do |record|
- bp.puts record.mask_seq!(options[:cutoff], options[:base])
-end
-