Merge branch 'features/JAL-4071_visibleFeaturesCounter' into features/JAL-3417_sdppre...

[jalview.git] / src / jalview / datamodel / SequenceGroup.java

diff --git a/src/jalview/datamodel/SequenceGroup.java b/src/jalview/datamodel/SequenceGroup.java
index fbf39ac..d9d2252 100755 (executable)
--- a/src/jalview/datamodel/SequenceGroup.java
+++ b/src/jalview/datamodel/SequenceGroup.java
@@ -109,7 +109,7 @@ public class SequenceGroup implements AnnotatedCollectionI
   private int startRes = 0;
 
   /**
-   *  end column (base 0)
+   * end column (base 0)
    */
   private int endRes = 0;
 
@@ -215,7 +215,7 @@ public class SequenceGroup implements AnnotatedCollectionI
       displayBoxes = seqsel.displayBoxes;
       displayText = seqsel.displayText;
       colourText = seqsel.colourText;
-      
+
       startRes = seqsel.startRes;
       endRes = seqsel.endRes;
       cs = new ResidueShader((ResidueShader) seqsel.cs);
@@ -270,7 +270,8 @@ public class SequenceGroup implements AnnotatedCollectionI
     for (int i = 0, ipos = 0; i < inorder.length; i++)
     {
       SequenceI seq = inorder[i];
-      SequenceI seqipos = seqs[ipos] = seq.getSubSequence(startRes, endRes + 1);
+      SequenceI seqipos = seqs[ipos] = seq.getSubSequence(startRes,
+              endRes + 1);
       if (seqipos != null)
       {
         seqipos.setDescription(seq.getDescription());
@@ -795,10 +796,9 @@ public class SequenceGroup implements AnnotatedCollectionI
   public void setStartRes(int newStart)
   {
     int before = startRes;
-   startRes= Math.max(0,newStart); // sanity check for negative start column positions
-   changeSupport.firePropertyChange(SEQ_GROUP_CHANGED, before, startRes);
-    
-
+    startRes = Math.max(0, newStart); // sanity check for negative start column
+                                      // positions
+    changeSupport.firePropertyChange(SEQ_GROUP_CHANGED, before, startRes);
 
   }