From: amwaterhouse <Andrew Waterhouse>
Date: Tue, 10 Oct 2006 14:10:35 +0000 (+0000)
Subject: Calculate alWidth earlier
X-Git-Tag: Release_2_2~289
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=0d742b24efde18a6c179affad234793dc2136ae1;p=jalview.git

Calculate alWidth earlier
---

diff --git a/src/jalview/gui/AlignViewport.java b/src/jalview/gui/AlignViewport.java
index 743c8dd..7d02e14 100755
--- a/src/jalview/gui/AlignViewport.java
+++ b/src/jalview/gui/AlignViewport.java
@@ -280,9 +280,11 @@ public class AlignViewport
         {
           long t = System.currentTimeMillis();
 
+          int alWidth = alignment.getWidth();
+
           Conservation cons = new jalview.analysis.Conservation("All",
               jalview.schemes.ResidueProperties.propHash, 3,
-              alignment.getSequences(), 0, alignment.getWidth() - 1);
+              alignment.getSequences(), 0, alWidth -1);
 
           cons.calculate();
           cons.verdict(false, ConsPercGaps);
@@ -295,7 +297,7 @@ public class AlignViewport
           System.out.println("Conservation took " + (System.currentTimeMillis() - t) +
                              "ms");
 
-          int alWidth = alignment.getWidth();
+
           String sequence = cons.getConsSequence().getSequence();
           float minR;
           float minG;