cluster.rb in lederhosen-1.4.0

- old
+ new

@@ -8,20 +8,22 @@
     method_option :database, :type => :string,  :required => true
     method_option :threads,  :type => :numeric, :default  => false
     method_option :identity, :type => :numeric, :required => true
     method_option :output,   :type => :string,  :required => true
     method_option :strand,   :type => :string,  :default => 'plus'
+    method_option :dry_run,  :type => :boolean, :default => false
 
     def cluster
       input    = File.expand_path(options[:input])
       database = File.expand_path(options[:database])
       threads  = options[:threads]
       identity = options[:identity]
       output   = File.expand_path(options[:output])
       strand   = options[:strand]
+      dry_run  = options[:dry_run]
 
-      ohai "clustering #{input} to #{database} and saving to #{output}"
+      ohai "#{'(dry run)' if dry_run} clustering #{input} to #{database} and saving to #{output}"
 
       options.each_pair do |key, value|
         ohai "#{key} = #{value}"
       end
 
@@ -38,9 +40,13 @@
         cmd << "--threads #{threads}"
       end
 
       cmd = cmd.join(' ')
 
-      run cmd
+      unless dry_run
+        run cmd
+      else
+        puts cmd
+      end
     end
   end
 end