-public class JalviewUserColours implements java.io.Serializable {
-
-
- //--------------------------/
- //- Class/Member Variables -/
- //--------------------------/
-
- /**
- * Field _schemeName.
- */
- private java.lang.String _schemeName;
-
- /**
- * Jalview colour scheme document version.
- *
- */
- private java.lang.String _version;
-
- /**
- * Field _colourList.
- */
- private java.util.Vector _colourList;
-
-
- //----------------/
- //- Constructors -/
- //----------------/
-
- public JalviewUserColours() {
- super();
- this._colourList = new java.util.Vector();
- }
-
-
- //-----------/
- //- Methods -/
- //-----------/
-
- /**
- *
- *
- * @param vColour
- * @throws java.lang.IndexOutOfBoundsException if the index
- * given is outside the bounds of the collection
- */
- public void addColour(
- final Colour vColour)
- throws java.lang.IndexOutOfBoundsException {
- this._colourList.addElement(vColour);
- }
-
- /**
- *
- *
- * @param index
- * @param vColour
- * @throws java.lang.IndexOutOfBoundsException if the index
- * given is outside the bounds of the collection
- */
- public void addColour(
- final int index,
- final Colour vColour)
- throws java.lang.IndexOutOfBoundsException {
- this._colourList.add(index, vColour);
- }
-
- /**
- * Method enumerateColour.
- *
- * @return an Enumeration over all Colour elements
- */
- public java.util.Enumeration enumerateColour(
- ) {
- return this._colourList.elements();
- }
-
- /**
- * Method getColour.
- *
- * @param index
- * @throws java.lang.IndexOutOfBoundsException if the index
- * given is outside the bounds of the collection
- * @return the value of the Colour at the given index
- */
- public Colour getColour(
- final int index)
- throws java.lang.IndexOutOfBoundsException {
- // check bounds for index
- if (index < 0 || index >= this._colourList.size()) {
- throw new IndexOutOfBoundsException("getColour: Index value '" + index + "' not in range [0.." + (this._colourList.size() - 1) + "]");
- }
-
- return (Colour) _colourList.get(index);
- }
-
- /**
- * Method getColour.Returns the contents of the collection in
- * an Array. <p>Note: Just in case the collection contents
- * are changing in another thread, we pass a 0-length Array of
- * the correct type into the API call. This way we <i>know</i>
- * that the Array returned is of exactly the correct length.
- *
- * @return this collection as an Array
- */
- public Colour[] getColour(
- ) {
- Colour[] array = new Colour[0];
- return (Colour[]) this._colourList.toArray(array);
+public class JalviewUserColours implements java.io.Serializable
+{
+
+ // --------------------------/
+ // - Class/Member Variables -/
+ // --------------------------/
+
+ /**
+ * Field _schemeName.
+ */
+ private java.lang.String _schemeName;
+
+ /**
+ * Jalview colour scheme document version.
+ *
+ */
+ private java.lang.String _version;
+
+ /**
+ * Field _colourList.
+ */
+ private java.util.Vector _colourList;
+
+ /**
+ * Field _filterList.
+ */
+ private java.util.Vector _filterList;
+
+ // ----------------/
+ // - Constructors -/
+ // ----------------/
+
+ public JalviewUserColours()
+ {
+ super();
+ this._colourList = new java.util.Vector();
+ this._filterList = new java.util.Vector();
+ }
+
+ // -----------/
+ // - Methods -/
+ // -----------/
+
+ /**
+ *
+ *
+ * @param vColour
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void addColour(final Colour vColour)
+ throws java.lang.IndexOutOfBoundsException
+ {
+ this._colourList.addElement(vColour);
+ }
+
+ /**
+ *
+ *
+ * @param index
+ * @param vColour
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void addColour(final int index, final Colour vColour)
+ throws java.lang.IndexOutOfBoundsException
+ {
+ this._colourList.add(index, vColour);
+ }
+
+ /**
+ *
+ *
+ * @param vFilter
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void addFilter(final Filter vFilter)
+ throws java.lang.IndexOutOfBoundsException
+ {
+ this._filterList.addElement(vFilter);
+ }
+
+ /**
+ *
+ *
+ * @param index
+ * @param vFilter
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void addFilter(final int index, final Filter vFilter)
+ throws java.lang.IndexOutOfBoundsException
+ {
+ this._filterList.add(index, vFilter);
+ }
+
+ /**
+ * Method enumerateColour.
+ *
+ * @return an Enumeration over all Colour elements
+ */
+ public java.util.Enumeration enumerateColour()
+ {
+ return this._colourList.elements();
+ }
+
+ /**
+ * Method enumerateFilter.
+ *
+ * @return an Enumeration over all Filter elements
+ */
+ public java.util.Enumeration enumerateFilter()
+ {
+ return this._filterList.elements();
+ }
+
+ /**
+ * Method getColour.
+ *
+ * @param index
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ * @return the value of the Colour at the given index
+ */
+ public Colour getColour(final int index)
+ throws java.lang.IndexOutOfBoundsException
+ {
+ // check bounds for index
+ if (index < 0 || index >= this._colourList.size())
+ {
+ throw new IndexOutOfBoundsException(
+ "getColour: Index value '" + index + "' not in range [0.."
+ + (this._colourList.size() - 1) + "]");