X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fschemabinding%2Fversion2%2FSequenceSet.java;h=91b00577d5bddcbb712889706edbfe27c33ede1b;hb=682c69b6a050a742d20f643459d8d8fbfecf40e1;hp=6f0342ba78ad6a546549c38720fe89bc4273ca50;hpb=9e69e298da663ca4c43f631bcca4dbb54da969f8;p=jalview.git

diff --git a/src/jalview/schemabinding/version2/SequenceSet.java b/src/jalview/schemabinding/version2/SequenceSet.java
index 6f0342b..91b0057 100755
--- a/src/jalview/schemabinding/version2/SequenceSet.java
+++ b/src/jalview/schemabinding/version2/SequenceSet.java
@@ -50,6 +50,11 @@ public class SequenceSet implements java.io.Serializable {
      */
     private java.util.Vector _annotationList;
 
+    /**
+     * Field _sequenceSetPropertiesList
+     */
+    private java.util.Vector _sequenceSetPropertiesList;
+
 
       //----------------/
      //- Constructors -/
@@ -59,6 +64,7 @@ public class SequenceSet implements java.io.Serializable {
         super();
         _sequenceList = new Vector();
         _annotationList = new Vector();
+        _sequenceSetPropertiesList = new Vector();
     } //-- jalview.schemabinding.version2.SequenceSet()
 
 
@@ -121,6 +127,33 @@ public class SequenceSet implements java.io.Serializable {
     } //-- void addSequence(int, jalview.schemabinding.version2.Sequence) 
 
     /**
+     * Method addSequenceSetProperties
+     * 
+     * 
+     * 
+     * @param vSequenceSetProperties
+     */
+    public void addSequenceSetProperties(jalview.schemabinding.version2.SequenceSetProperties vSequenceSetProperties)
+        throws java.lang.IndexOutOfBoundsException
+    {
+        _sequenceSetPropertiesList.addElement(vSequenceSetProperties);
+    } //-- void addSequenceSetProperties(jalview.schemabinding.version2.SequenceSetProperties) 
+
+    /**
+     * Method addSequenceSetProperties
+     * 
+     * 
+     * 
+     * @param index
+     * @param vSequenceSetProperties
+     */
+    public void addSequenceSetProperties(int index, jalview.schemabinding.version2.SequenceSetProperties vSequenceSetProperties)
+        throws java.lang.IndexOutOfBoundsException
+    {
+        _sequenceSetPropertiesList.insertElementAt(vSequenceSetProperties, index);
+    } //-- void addSequenceSetProperties(int, jalview.schemabinding.version2.SequenceSetProperties) 
+
+    /**
      * Method enumerateAnnotation
      * 
      * 
@@ -145,6 +178,18 @@ public class SequenceSet implements java.io.Serializable {
     } //-- java.util.Enumeration enumerateSequence() 
 
     /**
+     * Method enumerateSequenceSetProperties
+     * 
+     * 
+     * 
+     * @return Enumeration
+     */
+    public java.util.Enumeration enumerateSequenceSetProperties()
+    {
+        return _sequenceSetPropertiesList.elements();
+    } //-- java.util.Enumeration enumerateSequenceSetProperties() 
+
+    /**
      * Method getAnnotation
      * 
      * 
@@ -252,6 +297,54 @@ public class SequenceSet implements java.io.Serializable {
     } //-- int getSequenceCount() 
 
     /**
+     * Method getSequenceSetProperties
+     * 
+     * 
+     * 
+     * @param index
+     * @return SequenceSetProperties
+     */
+    public jalview.schemabinding.version2.SequenceSetProperties getSequenceSetProperties(int index)
+        throws java.lang.IndexOutOfBoundsException
+    {
+        //-- check bounds for index
+        if ((index < 0) || (index > _sequenceSetPropertiesList.size())) {
+            throw new IndexOutOfBoundsException();
+        }
+        
+        return (jalview.schemabinding.version2.SequenceSetProperties) _sequenceSetPropertiesList.elementAt(index);
+    } //-- jalview.schemabinding.version2.SequenceSetProperties getSequenceSetProperties(int) 
+
+    /**
+     * Method getSequenceSetProperties
+     * 
+     * 
+     * 
+     * @return SequenceSetProperties
+     */
+    public jalview.schemabinding.version2.SequenceSetProperties[] getSequenceSetProperties()
+    {
+        int size = _sequenceSetPropertiesList.size();
+        jalview.schemabinding.version2.SequenceSetProperties[] mArray = new jalview.schemabinding.version2.SequenceSetProperties[size];
+        for (int index = 0; index < size; index++) {
+            mArray[index] = (jalview.schemabinding.version2.SequenceSetProperties) _sequenceSetPropertiesList.elementAt(index);
+        }
+        return mArray;
+    } //-- jalview.schemabinding.version2.SequenceSetProperties[] getSequenceSetProperties() 
+
+    /**
+     * Method getSequenceSetPropertiesCount
+     * 
+     * 
+     * 
+     * @return int
+     */
+    public int getSequenceSetPropertiesCount()
+    {
+        return _sequenceSetPropertiesList.size();
+    } //-- int getSequenceSetPropertiesCount() 
+
+    /**
      * Method isValid
      * 
      * 
@@ -316,6 +409,15 @@ public class SequenceSet implements java.io.Serializable {
     } //-- void removeAllSequence() 
 
     /**
+     * Method removeAllSequenceSetProperties
+     * 
+     */
+    public void removeAllSequenceSetProperties()
+    {
+        _sequenceSetPropertiesList.removeAllElements();
+    } //-- void removeAllSequenceSetProperties() 
+
+    /**
      * Method removeAnnotation
      * 
      * 
@@ -346,6 +448,21 @@ public class SequenceSet implements java.io.Serializable {
     } //-- jalview.schemabinding.version2.Sequence removeSequence(int) 
 
     /**
+     * Method removeSequenceSetProperties
+     * 
+     * 
+     * 
+     * @param index
+     * @return SequenceSetProperties
+     */
+    public jalview.schemabinding.version2.SequenceSetProperties removeSequenceSetProperties(int index)
+    {
+        java.lang.Object obj = _sequenceSetPropertiesList.elementAt(index);
+        _sequenceSetPropertiesList.removeElementAt(index);
+        return (jalview.schemabinding.version2.SequenceSetProperties) obj;
+    } //-- jalview.schemabinding.version2.SequenceSetProperties removeSequenceSetProperties(int) 
+
+    /**
      * Method setAnnotation
      * 
      * 
@@ -424,6 +541,40 @@ public class SequenceSet implements java.io.Serializable {
     } //-- void setSequence(jalview.schemabinding.version2.Sequence) 
 
     /**
+     * Method setSequenceSetProperties
+     * 
+     * 
+     * 
+     * @param index
+     * @param vSequenceSetProperties
+     */
+    public void setSequenceSetProperties(int index, jalview.schemabinding.version2.SequenceSetProperties vSequenceSetProperties)
+        throws java.lang.IndexOutOfBoundsException
+    {
+        //-- check bounds for index
+        if ((index < 0) || (index > _sequenceSetPropertiesList.size())) {
+            throw new IndexOutOfBoundsException();
+        }
+        _sequenceSetPropertiesList.setElementAt(vSequenceSetProperties, index);
+    } //-- void setSequenceSetProperties(int, jalview.schemabinding.version2.SequenceSetProperties) 
+
+    /**
+     * Method setSequenceSetProperties
+     * 
+     * 
+     * 
+     * @param sequenceSetPropertiesArray
+     */
+    public void setSequenceSetProperties(jalview.schemabinding.version2.SequenceSetProperties[] sequenceSetPropertiesArray)
+    {
+        //-- copy array
+        _sequenceSetPropertiesList.removeAllElements();
+        for (int i = 0; i < sequenceSetPropertiesArray.length; i++) {
+            _sequenceSetPropertiesList.addElement(sequenceSetPropertiesArray[i]);
+        }
+    } //-- void setSequenceSetProperties(jalview.schemabinding.version2.SequenceSetProperties) 
+
+    /**
      * Method unmarshal
      * 
      *