From f1c27789be9b60db39b05068e166c91a001fc660 Mon Sep 17 00:00:00 2001
From: jprocter <Jim Procter>
Date: Thu, 26 Apr 2007 17:13:12 +0000
Subject: [PATCH] bug fixed basic score extraction by regex on description
 method

---
 src/jalview/analysis/ParseProperties.java |    6 ++++--
 1 file changed, 4 insertions(+), 2 deletions(-)

diff --git a/src/jalview/analysis/ParseProperties.java b/src/jalview/analysis/ParseProperties.java
index c23cb3a..43460d6 100644
--- a/src/jalview/analysis/ParseProperties.java
+++ b/src/jalview/analysis/ParseProperties.java
@@ -82,9 +82,9 @@ public class ParseProperties
         for (int cols=0; cols<pattern.numSubs(); cols++)
         {
           String sstring = pattern.stringMatched(cols+1);
-          float score;
+          double score=Double.NaN;
           try {
-            score = new Float(sstring).floatValue();
+            score = new Double(sstring).doubleValue();
           }
           catch (Exception e)
           {
@@ -94,6 +94,8 @@ public class ParseProperties
           // add score to sequence annotation.
           AlignmentAnnotation an = new AlignmentAnnotation(ScoreNames[cols], ScoreDescriptions[cols], null);
           an.setScore(score);
+          System.out.println("Score: "+ScoreNames[cols]+"="+score); // DEBUG
+          an.setSequenceRef(seqs[i]);
           seqs[i].addAlignmentAnnotation(an);
           al.addAnnotation(an);
           added=true;
-- 
1.7.10.2