X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fbinding%2FVAMSAS.java;h=b5a32da99851eb7d9a7b909dc3cdb9f22cd8211c;hb=e476751dd0458380e5bc494835c1672df21c8e6f;hp=ca813a1d2fe7655c2eabe28596746bbf4ac8808b;hpb=b2f9a8d7bce642ff4011bc6d49e02bb0569fbb11;p=jalview.git
diff --git a/src/jalview/binding/VAMSAS.java b/src/jalview/binding/VAMSAS.java
index ca813a1..b5a32da 100644
--- a/src/jalview/binding/VAMSAS.java
+++ b/src/jalview/binding/VAMSAS.java
@@ -1,21 +1,10 @@
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.1)
- * 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
+ * Schema.
+ * $Id$
*/
+
package jalview.binding;
//---------------------------------/
@@ -116,7 +105,8 @@ public class VAMSAS implements java.io.Serializable
* @throws java.lang.IndexOutOfBoundsException
* if the index given is outside the bounds of the collection
*/
- public void addSequenceSet(final int index, final SequenceSet vSequenceSet)
+ public void addSequenceSet(final int index,
+ final SequenceSet vSequenceSet)
throws java.lang.IndexOutOfBoundsException
{
this._sequenceSetList.add(index, vSequenceSet);
@@ -193,9 +183,9 @@ public class VAMSAS implements java.io.Serializable
// check bounds for index
if (index < 0 || index >= this._alignmentList.size())
{
- throw new IndexOutOfBoundsException("getAlignment: Index value '"
- + index + "' not in range [0.."
- + (this._alignmentList.size() - 1) + "]");
+ throw new IndexOutOfBoundsException(
+ "getAlignment: Index value '" + index + "' not in range [0.."
+ + (this._alignmentList.size() - 1) + "]");
}
return (Alignment) _alignmentList.get(index);
@@ -480,9 +470,9 @@ public class VAMSAS implements java.io.Serializable
// check bounds for index
if (index < 0 || index >= this._alignmentList.size())
{
- throw new IndexOutOfBoundsException("setAlignment: Index value '"
- + index + "' not in range [0.."
- + (this._alignmentList.size() - 1) + "]");
+ throw new IndexOutOfBoundsException(
+ "setAlignment: Index value '" + index + "' not in range [0.."
+ + (this._alignmentList.size() - 1) + "]");
}
this._alignmentList.set(index, vAlignment);
@@ -512,7 +502,8 @@ public class VAMSAS implements java.io.Serializable
* @throws java.lang.IndexOutOfBoundsException
* if the index given is outside the bounds of the collection
*/
- public void setSequenceSet(final int index, final SequenceSet vSequenceSet)
+ public void setSequenceSet(final int index,
+ final SequenceSet vSequenceSet)
throws java.lang.IndexOutOfBoundsException
{
// check bounds for index
@@ -590,12 +581,13 @@ public class VAMSAS implements java.io.Serializable
* if this object is an invalid instance according to the schema
* @return the unmarshaled jalview.binding.VAMSAS
*/
- public static jalview.binding.VAMSAS unmarshal(final java.io.Reader reader)
+ public static jalview.binding.VAMSAS unmarshal(
+ final java.io.Reader reader)
throws org.exolab.castor.xml.MarshalException,
org.exolab.castor.xml.ValidationException
{
- return (jalview.binding.VAMSAS) Unmarshaller.unmarshal(
- jalview.binding.VAMSAS.class, reader);
+ return (jalview.binding.VAMSAS) Unmarshaller
+ .unmarshal(jalview.binding.VAMSAS.class, reader);
}
/**