private java.util.Vector _treeList;
/**
- * Field _sequenceSetList
+ * Field _dataSetList
*/
- private java.util.Vector _sequenceSetList;
+ private java.util.Vector _dataSetList;
//----------------/
{
super();
_treeList = new Vector();
- _sequenceSetList = new Vector();
+ _dataSetList = new Vector();
} //-- org.vamsas.objects.core.VAMSAS()
//-----------/
/**
- * Method addSequenceSet
+ * Method addDataSet
*
*
*
- * @param vSequenceSet
+ * @param vDataSet
*/
- public void addSequenceSet(org.vamsas.objects.core.SequenceSet vSequenceSet)
+ public void addDataSet(org.vamsas.objects.core.DataSet vDataSet)
throws java.lang.IndexOutOfBoundsException
{
- _sequenceSetList.addElement(vSequenceSet);
- } //-- void addSequenceSet(org.vamsas.objects.core.SequenceSet)
+ _dataSetList.addElement(vDataSet);
+ } //-- void addDataSet(org.vamsas.objects.core.DataSet)
/**
- * Method addSequenceSet
+ * Method addDataSet
*
*
*
* @param index
- * @param vSequenceSet
+ * @param vDataSet
*/
- public void addSequenceSet(int index, org.vamsas.objects.core.SequenceSet vSequenceSet)
+ public void addDataSet(int index, org.vamsas.objects.core.DataSet vDataSet)
throws java.lang.IndexOutOfBoundsException
{
- _sequenceSetList.insertElementAt(vSequenceSet, index);
- } //-- void addSequenceSet(int, org.vamsas.objects.core.SequenceSet)
+ _dataSetList.insertElementAt(vDataSet, index);
+ } //-- void addDataSet(int, org.vamsas.objects.core.DataSet)
/**
* Method addTree
} //-- void addTree(int, org.vamsas.objects.core.Tree)
/**
- * Method enumerateSequenceSet
+ * Method enumerateDataSet
*
*
*
* @return Enumeration
*/
- public java.util.Enumeration enumerateSequenceSet()
+ public java.util.Enumeration enumerateDataSet()
{
- return _sequenceSetList.elements();
- } //-- java.util.Enumeration enumerateSequenceSet()
+ return _dataSetList.elements();
+ } //-- java.util.Enumeration enumerateDataSet()
/**
* Method enumerateTree
}
else if (temp._treeList != null)
return false;
- if (this._sequenceSetList != null) {
- if (temp._sequenceSetList == null) return false;
- else if (!(this._sequenceSetList.equals(temp._sequenceSetList)))
+ if (this._dataSetList != null) {
+ if (temp._dataSetList == null) return false;
+ else if (!(this._dataSetList.equals(temp._dataSetList)))
return false;
}
- else if (temp._sequenceSetList != null)
+ else if (temp._dataSetList != null)
return false;
return true;
}
} //-- boolean equals(java.lang.Object)
/**
- * Returns the value of field 'id'.
- *
- * @return String
- * @return the value of field 'id'.
- */
- public java.lang.String getId()
- {
- return this._id;
- } //-- java.lang.String getId()
-
- /**
- * Method getSequenceSet
+ * Method getDataSet
*
*
*
* @param index
- * @return SequenceSet
+ * @return DataSet
*/
- public org.vamsas.objects.core.SequenceSet getSequenceSet(int index)
+ public org.vamsas.objects.core.DataSet getDataSet(int index)
throws java.lang.IndexOutOfBoundsException
{
//-- check bounds for index
- if ((index < 0) || (index > _sequenceSetList.size())) {
- throw new IndexOutOfBoundsException("getSequenceSet: Index value '"+index+"' not in range [0.."+_sequenceSetList.size()+ "]");
+ if ((index < 0) || (index > _dataSetList.size())) {
+ throw new IndexOutOfBoundsException("getDataSet: Index value '"+index+"' not in range [0.."+_dataSetList.size()+ "]");
}
- return (org.vamsas.objects.core.SequenceSet) _sequenceSetList.elementAt(index);
- } //-- org.vamsas.objects.core.SequenceSet getSequenceSet(int)
+ return (org.vamsas.objects.core.DataSet) _dataSetList.elementAt(index);
+ } //-- org.vamsas.objects.core.DataSet getDataSet(int)
/**
- * Method getSequenceSet
+ * Method getDataSet
*
*
*
- * @return SequenceSet
+ * @return DataSet
*/
- public org.vamsas.objects.core.SequenceSet[] getSequenceSet()
+ public org.vamsas.objects.core.DataSet[] getDataSet()
{
- int size = _sequenceSetList.size();
- org.vamsas.objects.core.SequenceSet[] mArray = new org.vamsas.objects.core.SequenceSet[size];
+ int size = _dataSetList.size();
+ org.vamsas.objects.core.DataSet[] mArray = new org.vamsas.objects.core.DataSet[size];
for (int index = 0; index < size; index++) {
- mArray[index] = (org.vamsas.objects.core.SequenceSet) _sequenceSetList.elementAt(index);
+ mArray[index] = (org.vamsas.objects.core.DataSet) _dataSetList.elementAt(index);
}
return mArray;
- } //-- org.vamsas.objects.core.SequenceSet[] getSequenceSet()
+ } //-- org.vamsas.objects.core.DataSet[] getDataSet()
/**
- * Method getSequenceSetCount
+ * Method getDataSetCount
*
*
*
* @return int
*/
- public int getSequenceSetCount()
+ public int getDataSetCount()
{
- return _sequenceSetList.size();
- } //-- int getSequenceSetCount()
+ return _dataSetList.size();
+ } //-- int getDataSetCount()
+
+ /**
+ * Returns the value of field 'id'.
+ *
+ * @return String
+ * @return the value of field 'id'.
+ */
+ public java.lang.String getId()
+ {
+ return this._id;
+ } //-- java.lang.String getId()
/**
* Method getTree
} //-- void marshal(org.xml.sax.ContentHandler)
/**
- * Method removeAllSequenceSet
+ * Method removeAllDataSet
*
*/
- public void removeAllSequenceSet()
+ public void removeAllDataSet()
{
- _sequenceSetList.removeAllElements();
- } //-- void removeAllSequenceSet()
+ _dataSetList.removeAllElements();
+ } //-- void removeAllDataSet()
/**
* Method removeAllTree
} //-- void removeAllTree()
/**
- * Method removeSequenceSet
+ * Method removeDataSet
*
*
*
* @param index
- * @return SequenceSet
+ * @return DataSet
*/
- public org.vamsas.objects.core.SequenceSet removeSequenceSet(int index)
+ public org.vamsas.objects.core.DataSet removeDataSet(int index)
{
- java.lang.Object obj = _sequenceSetList.elementAt(index);
- _sequenceSetList.removeElementAt(index);
- return (org.vamsas.objects.core.SequenceSet) obj;
- } //-- org.vamsas.objects.core.SequenceSet removeSequenceSet(int)
+ java.lang.Object obj = _dataSetList.elementAt(index);
+ _dataSetList.removeElementAt(index);
+ return (org.vamsas.objects.core.DataSet) obj;
+ } //-- org.vamsas.objects.core.DataSet removeDataSet(int)
/**
* Method removeTree
} //-- org.vamsas.objects.core.Tree removeTree(int)
/**
- * Sets the value of field 'id'.
- *
- * @param id the value of field 'id'.
- */
- public void setId(java.lang.String id)
- {
- this._id = id;
- } //-- void setId(java.lang.String)
-
- /**
- * Method setSequenceSet
+ * Method setDataSet
*
*
*
* @param index
- * @param vSequenceSet
+ * @param vDataSet
*/
- public void setSequenceSet(int index, org.vamsas.objects.core.SequenceSet vSequenceSet)
+ public void setDataSet(int index, org.vamsas.objects.core.DataSet vDataSet)
throws java.lang.IndexOutOfBoundsException
{
//-- check bounds for index
- if ((index < 0) || (index > _sequenceSetList.size())) {
- throw new IndexOutOfBoundsException("setSequenceSet: Index value '"+index+"' not in range [0.."+_sequenceSetList.size()+ "]");
+ if ((index < 0) || (index > _dataSetList.size())) {
+ throw new IndexOutOfBoundsException("setDataSet: Index value '"+index+"' not in range [0.."+_dataSetList.size()+ "]");
}
- _sequenceSetList.setElementAt(vSequenceSet, index);
- } //-- void setSequenceSet(int, org.vamsas.objects.core.SequenceSet)
+ _dataSetList.setElementAt(vDataSet, index);
+ } //-- void setDataSet(int, org.vamsas.objects.core.DataSet)
/**
- * Method setSequenceSet
+ * Method setDataSet
*
*
*
- * @param sequenceSetArray
+ * @param dataSetArray
*/
- public void setSequenceSet(org.vamsas.objects.core.SequenceSet[] sequenceSetArray)
+ public void setDataSet(org.vamsas.objects.core.DataSet[] dataSetArray)
{
//-- copy array
- _sequenceSetList.removeAllElements();
- for (int i = 0; i < sequenceSetArray.length; i++) {
- _sequenceSetList.addElement(sequenceSetArray[i]);
+ _dataSetList.removeAllElements();
+ for (int i = 0; i < dataSetArray.length; i++) {
+ _dataSetList.addElement(dataSetArray[i]);
}
- } //-- void setSequenceSet(org.vamsas.objects.core.SequenceSet)
+ } //-- void setDataSet(org.vamsas.objects.core.DataSet)
+
+ /**
+ * Sets the value of field 'id'.
+ *
+ * @param id the value of field 'id'.
+ */
+ public void setId(java.lang.String id)
+ {
+ this._id = id;
+ } //-- void setId(java.lang.String)
/**
* Method setTree
git://source.jalview.org / vamsas.git / blobdiff