sequence_group.rb in seqtrimnext-2.0.52

- old
+ new

@@ -8,10 +8,11 @@
   def initialize(seqs)
     @stats={}
     @seqs=seqs
     @output_text={}
     @output_files={}
+    
   end
   
   
   def push(seq)
     @seqs.push seq
@@ -29,10 +30,17 @@
   def each
       @seqs.each do |seq|
         yield seq
       end
   end
+  
+  def each_slice(n)
+      @seqs.each_slice(n) do |seqs|
+        yield seqs
+      end
+  end
+  
 
   def each_with_index
       @seqs.each_with_index do |seq,i|
         yield seq,i
       end
@@ -44,10 +52,22 @@
         yield seq
       end
   end
   
   def add(array)
-    @seqs += array
+    @seqs = @seqs + array
+
+    # sort by tuple_id and order in tuple
+    @seqs.sort! do |a,b|
+      comp = (a.tuple_id <=> b.tuple_id)
+      comp.zero? ? (a.order_in_tuple <=> b.order_in_tuple) : comp
+    end
+
+    # print
+    # @seqs.each do |s|
+    #   puts "TID:#{s.tuple_id}, OIT: #{s.order_in_tuple}"
+    # end
+    
   end
   
   def count
     return @seqs.count
   end
\ No newline at end of file