lib/genomer/plugin.rb in genomer-0.0.5 vs lib/genomer/plugin.rb in genomer-0.0.6

@@ -80,20 +80,18 @@
 
   # The genome scaffold constructed from the files in the "ROOT/assembly/" directory.
   #
   # @return [Array] An array of Scaffolder::Region instances
   def scaffold
-    YAML::ENGINE.yamler = 'syck'
+    YAML::ENGINE.yamler = 'syck' if defined?(YAML::ENGINE)
     Scaffolder.new(YAML.load(File.read(scaffold_file)),sequence_file)
   end
 
   def annotations(options = {})
     attns = Scaffolder::AnnotationLocator.new(
       scaffold_file,sequence_file,annotation_file)
 
-    attns.sort_by! do |attn|
-      [attn.start,attn.end]
-    end
+    attns = attns.sort_by{|attn| [attn.start,attn.end] }
 
     if value = options[:reset]
       start = value.to_s =~ /^[-+]?[0-9]+$/ ? value.to_i : 1
 
       genes = attns.select{|i| i.feature == 'gene'}