X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FPairwiseAlignPanel.java;fp=src%2Fjalview%2Fgui%2FPairwiseAlignPanel.java;h=c4b53675abfa3830ed371f5826ebe175d5207ba6;hb=3459a8a691cb22508d7067f240b7254e588e77d3;hp=d0817946f6cccae0b1725ace72a4358f8da85e5d;hpb=5b27f1062b2203c4c31702e205f4c78e1992063e;p=jalview.git

diff --git a/src/jalview/gui/PairwiseAlignPanel.java b/src/jalview/gui/PairwiseAlignPanel.java
index d081794..c4b5367 100755
--- a/src/jalview/gui/PairwiseAlignPanel.java
+++ b/src/jalview/gui/PairwiseAlignPanel.java
@@ -65,14 +65,14 @@ public class PairwiseAlignPanel extends GPairwiseAlignPanel
             && selectionGroup.getSize() > 0;
     AlignmentView view = viewport.getAlignmentView(isSelection);
     // String[] seqStrings = viewport.getViewAsString(true);
-    String[] seqStrings = view.getSequenceStrings(viewport
-            .getGapCharacter());
+    String[] seqStrings = view
+            .getSequenceStrings(viewport.getGapCharacter());
 
     SequenceI[] seqs;
     if (isSelection)
     {
-      seqs = (SequenceI[]) view.getAlignmentAndHiddenColumns(viewport
-              .getGapCharacter())[0];
+      seqs = (SequenceI[]) view
+              .getAlignmentAndHiddenColumns(viewport.getGapCharacter())[0];
     }
     else
     {
@@ -109,8 +109,7 @@ public class PairwiseAlignPanel extends GPairwiseAlignPanel
         }
         first = false;
         as.printAlignment(System.out);
-        scores[i][j] = as.getMaxScore()
-                / as.getASeq1().length;
+        scores[i][j] = as.getMaxScore() / as.getASeq1().length;
         totscore = totscore + scores[i][j];
 
         textarea.append(as.getOutput());
@@ -140,8 +139,8 @@ public class PairwiseAlignPanel extends GPairwiseAlignPanel
 
     for (int i = 0; i < seqs.length; i++)
     {
-      System.out.println(String.format("%3d %s", i + 1,
-              seqs[i].getDisplayId(true)));
+      System.out.println(
+              String.format("%3d %s", i + 1, seqs[i].getDisplayId(true)));
     }
 
     /*