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Hibernate version:
3.0

Mapping documents:
<?xml version="1.0"?>
<!DOCTYPE hibernate-mapping PUBLIC
"-//Hibernate/Hibernate Mapping DTD 3.0//EN"
"http://hibernate.sourceforge.net/hibernate-mapping-3.0.dtd" >

<hibernate-mapping default-lazy="false">
<!--
Created by the Middlegen Hibernate plugin 2.1

http://boss.bekk.no/boss/middlegen/
http://www.hibernate.org/
-->

<class
name="com.xxx.bean.Associatedsample"
table="ASSOCIATEDSAMPLES"
dynamic-update="true"
dynamic-insert="true"
>

<meta attribute="implement-equals" inherit="false">true</meta>

<id
name="associatedsamplesid"
type="java.lang.Long"
column="ASSOCIATEDSAMPLESID"
>
<generator class="native">
<param name="sequence">ASSOCIATEDSAMPLESID_SEQ</param>
</generator>
</id>

<property
name="associatedsampleNumber"
type="java.lang.String"
column="ASSOCIATEDSAMPLE_NUMBER"
length="50"
/>
<property
name="defectStatus"
type="java.lang.String"
column="DEFECT_STATUS"
length="1"
/>

<!-- Associations -->


<!-- bi-directional many-to-one association to Sampleassociationcontext -->
<many-to-one
name="sampleassociationcontext"
class="com.xxx.bean.Sampleassociationcontext"
not-null="true"
>
<column name="SAMPLEASSOCIATIONCONTEXTID"/>
</many-to-one>

</class>
</hibernate-mapping>


Code between sessionFactory.openSession() and session.close():
String hqlUpdate = "update AssociatedSample set defectStatus = :defectStatus " +
" where datadeliverabletracking = :param2 and associatedsamplesid in (:param3)" ;

Transaction tx = null;
try {
Session session = getSession();
tx = session.beginTransaction();
Query qry = session.createQuery(hqlUpdate);

qry.setParameter("defectStatus", defectStatus);
qry.setParameter("param2", ddtId);

List results = new ArrayList();
for (int i = 0; i < sampleIds.length; i++) {
results.add(sampleIds[i]);
}
qry.setParameterList("param3", results);

qry.executeUpdate();
tx.commit();
} catch (HibernateException he) {
try {
tx.rollback();
} catch (HibernateException e) {
throw new RuntimeException(e.getMessage(), e);
}
throw new RuntimeException(he.getMessage(), he);
}

Full stack trace of any exception that occurs:
11:31:58,323 ERROR [PARSER] *** ERROR: AssociatedSample is not mapped.
11:34:56,826 ERROR [ExesExceptionHandler] java.lang.IndexOutOfBoundsException: Index: 0, Size: 0
java.lang.IndexOutOfBoundsException: Index: 0, Size: 0
at java.util.ArrayList.RangeCheck(ArrayList.java:547)
at java.util.ArrayList.get(ArrayList.java:322)
at org.hibernate.hql.ast.HqlSqlWalker.postProcessUpdate(HqlSqlWalker.java:390)
at org.hibernate.hql.antlr.HqlSqlBaseWalker.statement(HqlSqlBaseWalker.java:164)
at org.hibernate.hql.ast.QueryTranslatorImpl.analyze(QueryTranslatorImpl.java:189)
at org.hibernate.hql.ast.QueryTranslatorImpl.doCompile(QueryTranslatorImpl.java:130)
at org.hibernate.hql.ast.QueryTranslatorImpl.compile(QueryTranslatorImpl.java:83)
at org.hibernate.impl.SessionFactoryImpl.getQuery(SessionFactoryImpl.java:427)
at org.hibernate.impl.SessionImpl.getQueries(SessionImpl.java:884)
at org.hibernate.impl.SessionImpl.executeUpdate(SessionImpl.java:865)
at org.hibernate.impl.QueryImpl.executeUpdate(QueryImpl.java:89)

Name and version of the database you are using:
Oracle 9

The generated SQL (show_sql=true):

Debug level Hibernate log excerpt:

Any help is appreciated.

Thanks

If you are configuring SessionFactory from config file, check whether you have following element.

<mapping resource="AssociatedSample.hbm.xml"/>

If getSession() has implementation to configure programmatically check respective information is configured.

I have it defined in the application context file where I configure the sessionfactory.

<value>hibernate/Associatedsample.hbm.xml</value>

You should test if your SessionFactory is getting that file.

try this below code and verify if it contains com.xxx.bean.Associatedsample.