JSON refactoring

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

diff --git a/src/jalview/analysis/AlignmentUtils.java b/src/jalview/analysis/AlignmentUtils.java
index 14096cf..4f8897a 100644 (file)
--- a/src/jalview/analysis/AlignmentUtils.java
+++ b/src/jalview/analysis/AlignmentUtils.java
@@ -2320,10 +2320,14 @@ public class AlignmentUtils
       int phase = 0;
       try
       {
-        phase = Integer.parseInt(sf.getPhase());
+       String s = sf.getPhase();
+       if (s != null) 
+       {
+               phase = Integer.parseInt(s);
+       }
       } catch (NumberFormatException e)
       {
-        // ignore
+        // SwingJS -- need to avoid these.
       }
       /*
        * phase > 0 on first codon means 5' incomplete - skip to the start