JAL-3210 Improvements to eclipse detection. New src tree and SwingJS updated from...

[jalview.git] / src / jalview / schemes / Consensus.java

diff --git a/src/jalview/schemes/Consensus.java b/src/jalview/schemes/Consensus.java
index 9d2c738..f0d1990 100755 (executable)
--- a/src/jalview/schemes/Consensus.java
+++ b/src/jalview/schemes/Consensus.java
@@ -53,10 +53,8 @@ public class Consensus
   /**
    * @deprecated Use {@link #isConserved(int[][],int,int,boolean)} instead
    */
-  @Deprecated
   public boolean isConserved(int[][] cons2, int col, int size)
   {
-    System.out.println("DEPRECATED!!!!");
     return isConserved(cons2, col, size, true);
   }
 
@@ -73,7 +71,7 @@ public class Consensus
       tot += cons2[col][mask[i]];
     }
 
-    if (tot > ((threshold * size) / 100))
+    if ((double) tot > ((threshold * size) / 100))
     {
       // System.out.println("True conserved "+tot+" from "+threshold+" out of
       // "+size+" : "+maskstr);