X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fschemabinding%2Fversion2%2FJalviewUserColours.java;h=c8d52ac555b46a982324d5dcef108ef7c12e437c;hb=14b1b2a878190d5fffda298c4b9a901c72c74ad3;hp=80e3bf085641762146d27e914728fe82bcbc17ac;hpb=a8f483d04205bb8273ee311c12968b7e86d205fa;p=jalview.git
diff --git a/src/jalview/schemabinding/version2/JalviewUserColours.java b/src/jalview/schemabinding/version2/JalviewUserColours.java
index 80e3bf0..c8d52ac 100644
--- a/src/jalview/schemabinding/version2/JalviewUserColours.java
+++ b/src/jalview/schemabinding/version2/JalviewUserColours.java
@@ -1,22 +1,3 @@
-/*******************************************************************************
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * Copyright (C) 2014 The Jalview Authors
- *
- * This file is part of Jalview.
- *
- * Jalview is free software: you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
- *
- * Jalview is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty
- * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
- * PURPOSE. See the GNU General Public License for more details.
- *
- * You should have received a copy of the GNU General Public License along with Jalview.
- * If not, see .
- * The Jalview Authors are detailed in the 'AUTHORS' file.
- ******************************************************************************/
/*
* This class was automatically generated with
* Castor 1.1, using an XML
@@ -61,6 +42,11 @@ public class JalviewUserColours implements java.io.Serializable
*/
private java.util.Vector _colourList;
+ /**
+ * Field _filterList.
+ */
+ private java.util.Vector _filterList;
+
// ----------------/
// - Constructors -/
// ----------------/
@@ -69,6 +55,7 @@ public class JalviewUserColours implements java.io.Serializable
{
super();
this._colourList = new java.util.Vector();
+ this._filterList = new java.util.Vector();
}
// -----------/
@@ -103,6 +90,33 @@ public class JalviewUserColours implements java.io.Serializable
}
/**
+ *
+ *
+ * @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
@@ -113,6 +127,16 @@ public class JalviewUserColours implements java.io.Serializable
}
/**
+ * Method enumerateFilter.
+ *
+ * @return an Enumeration over all Filter elements
+ */
+ public java.util.Enumeration enumerateFilter()
+ {
+ return this._filterList.elements();
+ }
+
+ /**
* Method getColour.
*
* @param index
@@ -126,9 +150,9 @@ public class JalviewUserColours implements java.io.Serializable
// 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) + "]");
+ throw new IndexOutOfBoundsException(
+ "getColour: Index value '" + index + "' not in range [0.."
+ + (this._colourList.size() - 1) + "]");
}
return (Colour) _colourList.get(index);
@@ -160,6 +184,53 @@ public class JalviewUserColours implements java.io.Serializable
}
/**
+ * Method getFilter.
+ *
+ * @param index
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ * @return the value of the Filter at the given index
+ */
+ public Filter getFilter(final int index)
+ throws java.lang.IndexOutOfBoundsException
+ {
+ // check bounds for index
+ if (index < 0 || index >= this._filterList.size())
+ {
+ throw new IndexOutOfBoundsException(
+ "getFilter: Index value '" + index + "' not in range [0.."
+ + (this._filterList.size() - 1) + "]");
+ }
+
+ return (Filter) _filterList.get(index);
+ }
+
+ /**
+ * Method getFilter.Returns the contents of the collection in an Array.
+ *
+ * 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
+ * know that the Array returned is of exactly the correct length.
+ *
+ * @return this collection as an Array
+ */
+ public Filter[] getFilter()
+ {
+ Filter[] array = new Filter[0];
+ return (Filter[]) this._filterList.toArray(array);
+ }
+
+ /**
+ * Method getFilterCount.
+ *
+ * @return the size of this collection
+ */
+ public int getFilterCount()
+ {
+ return this._filterList.size();
+ }
+
+ /**
* Returns the value of field 'schemeName'.
*
* @return the value of field 'SchemeName'.
@@ -236,13 +307,20 @@ public class JalviewUserColours implements java.io.Serializable
}
/**
- */
+ */
public void removeAllColour()
{
this._colourList.clear();
}
/**
+ */
+ public void removeAllFilter()
+ {
+ this._filterList.clear();
+ }
+
+ /**
* Method removeColour.
*
* @param vColour
@@ -267,6 +345,30 @@ public class JalviewUserColours implements java.io.Serializable
}
/**
+ * Method removeFilter.
+ *
+ * @param vFilter
+ * @return true if the object was removed from the collection.
+ */
+ public boolean removeFilter(final Filter vFilter)
+ {
+ boolean removed = _filterList.remove(vFilter);
+ return removed;
+ }
+
+ /**
+ * Method removeFilterAt.
+ *
+ * @param index
+ * @return the element removed from the collection
+ */
+ public Filter removeFilterAt(final int index)
+ {
+ java.lang.Object obj = this._filterList.remove(index);
+ return (Filter) obj;
+ }
+
+ /**
*
*
* @param index
@@ -280,9 +382,9 @@ public class JalviewUserColours implements java.io.Serializable
// check bounds for index
if (index < 0 || index >= this._colourList.size())
{
- throw new IndexOutOfBoundsException("setColour: Index value '"
- + index + "' not in range [0.."
- + (this._colourList.size() - 1) + "]");
+ throw new IndexOutOfBoundsException(
+ "setColour: Index value '" + index + "' not in range [0.."
+ + (this._colourList.size() - 1) + "]");
}
this._colourList.set(index, vColour);
@@ -305,6 +407,44 @@ public class JalviewUserColours implements java.io.Serializable
}
/**
+ *
+ *
+ * @param index
+ * @param vFilter
+ * @throws java.lang.IndexOutOfBoundsException
+ * if the index given is outside the bounds of the collection
+ */
+ public void setFilter(final int index, final Filter vFilter)
+ throws java.lang.IndexOutOfBoundsException
+ {
+ // check bounds for index
+ if (index < 0 || index >= this._filterList.size())
+ {
+ throw new IndexOutOfBoundsException(
+ "setFilter: Index value '" + index + "' not in range [0.."
+ + (this._filterList.size() - 1) + "]");
+ }
+
+ this._filterList.set(index, vFilter);
+ }
+
+ /**
+ *
+ *
+ * @param vFilterArray
+ */
+ public void setFilter(final Filter[] vFilterArray)
+ {
+ // -- copy array
+ _filterList.clear();
+
+ for (int i = 0; i < vFilterArray.length; i++)
+ {
+ this._filterList.add(vFilterArray[i]);
+ }
+ }
+
+ /**
* Sets the value of field 'schemeName'.
*
* @param schemeName