JAL-845 implement alignment of protein to match cDNA alignment

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

diff --git a/src/jalview/datamodel/Alignment.java b/src/jalview/datamodel/Alignment.java
index 56545e1..4558d8d 100755 (executable)
--- a/src/jalview/datamodel/Alignment.java
+++ b/src/jalview/datamodel/Alignment.java
@@ -1688,10 +1688,7 @@ public class Alignment implements AlignmentI
     boolean thatIsProtein = !al.isNucleotide();
     if (!thatIsProtein && !thisIsNucleotide)
     {
-      System.err
-              .println("Alignment of protein from cDNA not yet implemented");
-      return 0;
-      // todo: build it - a variant of Dna.CdnaTranslate()
+      return AlignmentUtils.alignProteinAsDna(this, al);
     }
 
     char thisGapChar = this.getGapCharacter();