From: gmungoc <g.m.carstairs@dundee.ac.uk>
Date: Tue, 16 Dec 2014 10:29:08 +0000 (+0000)
Subject: JAL-845 formatting only (block parentheses)
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=ba831154b9f32a28d7b0171cc89da59e3d677085;p=jalview.git

JAL-845 formatting only (block parentheses)
---

diff --git a/src/jalview/datamodel/AlignedCodonFrame.java b/src/jalview/datamodel/AlignedCodonFrame.java
index 3fc08d1..0740795 100644
--- a/src/jalview/datamodel/AlignedCodonFrame.java
+++ b/src/jalview/datamodel/AlignedCodonFrame.java
@@ -20,11 +20,11 @@
  */
 package jalview.datamodel;
 
+import jalview.util.MapList;
+
 import java.util.Enumeration;
 import java.util.Vector;
 
-import jalview.util.MapList;
-
 /**
  * Stores mapping between the columns of a protein alignment and a DNA alignment
  * and a list of individual codon to amino acid mappings between sequences.
@@ -58,7 +58,9 @@ public class AlignedCodonFrame
     }
     codons = new int[aWidth][];
     for (int res = 0; res < aWidth; res++)
+    {
       codons[res] = null;
+    }
   }
 
   /**
@@ -191,7 +193,9 @@ public class AlignedCodonFrame
   public SequenceI[] getAaSeqs()
   {
     if (dnaToProt == null)
+    {
       return null;
+    }
     SequenceI[] sqs = new SequenceI[dnaToProt.length];
     for (int sz = 0; sz < dnaToProt.length; sz++)
     {
@@ -203,7 +207,9 @@ public class AlignedCodonFrame
   public MapList[] getdnaToProt()
   {
     if (dnaToProt == null)
+    {
       return null;
+    }
     MapList[] sqs = new MapList[dnaToProt.length];
     for (int sz = 0; sz < dnaToProt.length; sz++)
     {
@@ -232,7 +238,9 @@ public class AlignedCodonFrame
     for (int ds = 0; ds < dnaSeqs.length; ds++)
     {
       if (dnaSeqs[ds] == dnaSeqRef || dnaSeqs[ds] == dnads)
+      {
         return dnaToProt[ds].to;
+      }
     }
     return null;
   }
@@ -252,7 +260,9 @@ public class AlignedCodonFrame
     for (int as = 0; as < dnaToProt.length; as++)
     {
       if (dnaToProt[as].to == aaSeqRef || dnaToProt[as].to == aads)
+      {
         return dnaSeqs[as];
+      }
     }
     return null;
   }