plugin_low_quality.rb in seqtrimnext-2.0.59

- old
+ new

@@ -117,10 +117,10 @@
    
   def exec_seq(seq,blast_query)
 
      if ((self.class.to_s=='PluginLowQuality') && seq.seq_qual.nil? ) 
        $LOG.debug " Quality File haven't been provided. It's impossible to execute " + self.class.to_s     
-     elsif (seq.seq_qual.size>0)
+     elsif ((seq.seq_qual.size>0) && (@params.get_param('use_qual')=='true'))
           
           $LOG.debug "[#{self.class.to_s}, seq: #{seq.seq_name}]: checking low quality of the sequence"
           
           min_quality=@params.get_param('min_quality').to_i
           min_length_inside_seq=@params.get_param('min_length_inside_seq').to_i