Make classes serializable for Spark

abradle · abradle · commit 56b1fec60551 · 2016-03-07T10:16:17.000-08:00
diff --git a/biojava-core/src/main/java/org/biojava/nbio/core/sequence/compound/AminoAcidCompound.java b/biojava-core/src/main/java/org/biojava/nbio/core/sequence/compound/AminoAcidCompound.java
@@ -40,9 +40,10 @@ public class AminoAcidCompound extends AbstractCompound implements Serializable
   /**
 	 * 
 	 */
-	private static final long serialVersionUID = -1955116496725902319L;
+private static final long serialVersionUID = -1955116496725902319L;
 private final AminoAcidCompoundSet compoundSet;
 
+
   public AminoAcidCompound(AminoAcidCompoundSet compoundSet, String shortName,
       String longName, String description, Float molecularWeight) {
     super(shortName);
diff --git a/biojava-core/src/main/java/org/biojava/nbio/core/sequence/template/AbstractCompound.java b/biojava-core/src/main/java/org/biojava/nbio/core/sequence/template/AbstractCompound.java
@@ -35,6 +35,13 @@ public abstract class AbstractCompound implements Compound {
   private String description = null;
   private Float molecularWeight = null;
 
+  
+  // Added an empty constructor for Serialization
+  public AbstractCompound(){
+	  this.base = null;
+	  this.upperedBase = null;
+  }
+  
   public AbstractCompound(String base) {
     this.base = base;
     this.upperedBase = base.toUpperCase();
