X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=bp_bin%2Fmean_scores;h=ed9ab8c409e82e24d1e30c5e053afebe4674a651;hb=5de6112b70b59420b245ce636a8b2e3c90acbe00;hp=adc80bc350abbba30de1d3d649ee61805d746c13;hpb=a761931fd09d82e1924dd0b3031fdcdf07f0d9a8;p=biopieces.git

diff --git a/bp_bin/mean_scores b/bp_bin/mean_scores
index adc80bc..ed9ab8c 100755
--- a/bp_bin/mean_scores
+++ b/bp_bin/mean_scores
@@ -31,8 +31,6 @@
 require 'maasha/biopieces'
 require 'maasha/seq'
 require 'inline'
-require 'pp'
-
 
 # Opening class Seq to add scores_mean_local(_C) methods.
 class Seq
@@ -40,7 +38,7 @@ class Seq
   # scores string and calculate for each window the mean score and return
   # the minimum mean score.
   def scores_mean_local(window_size)
-    scores_mean_local_C(self.qual, self.length, SCORE_BASE, window_size)
+    scores_mean_local_C(self.qual, self.length, Seq::SCORE_BASE, window_size)
   end
 
   inline do |builder|
@@ -92,7 +90,7 @@ options = Biopieces.options_parse(ARGV, casts)
 
 Biopieces.open(options[:stream_in], options[:stream_out]) do |input, output|
   input.each_record do |record|
-    if record[:SEQ] and record[:SCORES]
+    if record[:SEQ] and record[:SCORES] and record[:SEQ].length > 0
       entry = Seq.new_bp(record)
 
       if options[:local]