lib/sequenceserver/blast/query.rb in sequenceserver-1.0.14 vs lib/sequenceserver/blast/query.rb in sequenceserver-1.1.0.beta

@@ -7,21 +7,24 @@
     # @member [Fixnum]     length
     # @member [Array(Hit)] hits
     Query = Struct.new(:report, :number, :def, :length, :hits) do
       def initialize(*args)
         args[1] = args[1].to_i
-        args[2] = "Query_#{args[1]}" if args[2] == 'No definition line'
+        if args[2] == 'No definition line' ||
+            args[2] == 'unnamed protein product'
+          args[2] = "Query_#{args[1]}"
+        end
         args[3] = args[3].to_i
         @id, *rest = args[2].split
         @title = rest.join(' ')
         super
       end
 
-      def sort_hits_by_evalue!
-        # change made here
-        @hits = hits.sort_by { |h| [h.evalue, h.score] }
-      end
-
       attr_reader :id, :title
+
+      def to_json(*args)
+        [:number, :id, :title, :length, :hits]
+          .inject({}) { |h, k| h[k] = send(k); h }.to_json(*args)
+      end
     end
   end
 end