JAL-1421 generics loop syntax; 'bug?' comment added

[jalview.git] / src / jalview / analysis / AlignmentUtils.java

diff --git a/src/jalview/analysis/AlignmentUtils.java b/src/jalview/analysis/AlignmentUtils.java
index 05e844c..719dbfb 100644 (file)
--- a/src/jalview/analysis/AlignmentUtils.java
+++ b/src/jalview/analysis/AlignmentUtils.java
@@ -228,8 +228,8 @@ public class AlignmentUtils
    * @param cdnaAlignment
    * @return
    */
-  public static boolean mapProteinAlignmentToCdna(final AlignmentI proteinAlignment,
-          final AlignmentI cdnaAlignment)
+  public static boolean mapProteinAlignmentToCdna(
+          final AlignmentI proteinAlignment, final AlignmentI cdnaAlignment)
   {
     if (proteinAlignment == null || cdnaAlignment == null)
     {
@@ -429,8 +429,7 @@ public class AlignmentUtils
     {
       return null;
     }
-    if (!translatesAs(cdnaSeqChars, startOffset,
-            aaSeqChars))
+    if (!translatesAs(cdnaSeqChars, startOffset, aaSeqChars))
     {
       return null;
     }
@@ -1085,13 +1084,13 @@ public class AlignmentUtils
     SequenceI proteinDs = proteinSeq.getDatasetSequence() == null ? proteinSeq
             : proteinSeq.getDatasetSequence();
 
-    /*
-     * Already mapped?
-     */
     for (AlignedCodonFrame mapping : mappings)
     {
       if (proteinDs == mapping.getAaForDnaSeq(dnaDs))
       {
+        /*
+         * already mapped
+         */
         return true;
       }
     }