JAL-3070 tidying

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

diff --git a/src/jalview/datamodel/AlignmentAnnotation.java b/src/jalview/datamodel/AlignmentAnnotation.java
index 6ac5da8..3e532df 100755 (executable)
--- a/src/jalview/datamodel/AlignmentAnnotation.java
+++ b/src/jalview/datamodel/AlignmentAnnotation.java
@@ -94,6 +94,10 @@ public class AlignmentAnnotation
    */
   private long invalidrnastruc = -2;
 
+  private double bitScore;
+
+  private double eValue;
+
   /**
    * Updates the _rnasecstr field Determines the positions that base pair and
    * the positions of helices based on secondary structure from a Stockholm file
@@ -729,6 +733,9 @@ public class AlignmentAnnotation
     this.scaleColLabel = annotation.scaleColLabel;
     this.showAllColLabels = annotation.showAllColLabels;
     this.calcId = annotation.calcId;
+    this.bitScore = annotation.bitScore;
+    this.eValue = annotation.eValue;
+
     if (annotation.properties != null)
     {
       properties = new HashMap<>();
@@ -1714,4 +1721,24 @@ public class AlignmentAnnotation
     return aa;
   }
 
+  public double getBitScore()
+  {
+    return bitScore;
+  }
+
+  public void setBitScore(double bitScore)
+  {
+    this.bitScore = bitScore;
+  }
+
+  public double getEValue()
+  {
+    return eValue;
+  }
+
+  public void setEValue(double eValue)
+  {
+    this.eValue = eValue;
+  }
+
 }