rewrite GraphML importer/exporter

src/main/java/Vertex.java

@@ -1,10 +1,14 @@
 
 
 public class Vertex {
-    private final SequenceType type;
-    private final Integer vertexLabel;
-    private final Integer sequence;
-    private final Integer occupancy;
+    private  SequenceType type;
+    private  Integer vertexLabel;
+    private  Integer sequence;
+    private  Integer occupancy;
+
+    public Vertex(String vertexLabel) {
+        this.vertexLabel = Integer.parseInt((vertexLabel));
+    }
 
     public Vertex(SequenceType type, Integer sequence, Integer occupancy, Integer vertexLabel) {
         this.type = type;
@@ -13,15 +17,73 @@ public class Vertex {
         this.occupancy = occupancy;
     }
 
-    public SequenceType getType() { return type; }
 
-    public Integer getVertexLabel() { return vertexLabel; }
-
-    public Integer getSequence() {
-        return sequence;
+    public String getType() {
+        return type.name();
     }
 
-    public Integer getOccupancy() {
-        return occupancy;
+    public void setType(String type) {
+        this.type = SequenceType.valueOf(type);
     }
+
+    public String getVertexLabel() {
+        return vertexLabel.toString();
+    }
+
+    public void setVertexLabel(String label) {
+        this.vertexLabel = Integer.parseInt(label);
+    }
+
+    public String getSequence() {
+
+        return sequence.toString();
+    }
+
+    public void setSequence(String sequence) {
+        this.sequence = Integer.parseInt(sequence);
+    }
+
+    public String getOccupancy() {
+        return occupancy.toString();
+    }
+
+    public void setOccupancy(String occupancy) {
+        this.occupancy = Integer.parseInt(occupancy);
+    }
+
+    @Override //adapted from JGraphT example code
+    public int hashCode()
+    {
+        return (sequence == null) ? 0 : sequence.hashCode();
+    }
+
+    @Override //adapted from JGraphT example code
+    public boolean equals(Object obj)
+    {
+        if (this == obj)
+            return true;
+        if (obj == null)
+            return false;
+        if (getClass() != obj.getClass())
+            return false;
+        Vertex other = (Vertex) obj;
+        if (sequence == null) {
+            return other.sequence == null;
+        } else {
+            return sequence.equals(other.sequence);
+        }
+    }
+
+
+    @Override //adapted from JGraphT example code
+    public String toString()
+    {
+        StringBuilder sb = new StringBuilder();
+        sb.append("(").append(vertexLabel)
+                .append(", Type: ").append(type.name())
+                .append(", Sequence: ").append(sequence)
+                .append(", Occupancy: ").append(occupancy).append(")");
+        return sb.toString();
+    }
+
 }