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shoe
 Post subject: WrongClassException -- problem with subclass query
PostPosted: Wed Mar 09, 2005 6:23 pm 
Newbie

Joined: Mon Dec 13, 2004 5:56 pm
Posts: 12
Location: Montreal, QC
hello,

I'm going in circles with this class exception -- basically i'm trying to filter out items of a specifc class, using the discriminator value. but its really not working. i havea feeling i'm doing something wrong...

thanks,
sara
===================================================

Hibernate version:

3.0beta4 (reverted when i hit the problem with subqueries in the rc)

Mapping documents:

Code:
<class  name="Term" table="term">
<id name="id" column="id" type="integer">
<generator class="hilo"/>
</id>

<discriminator column="term_type" type="string"/>

<property name="name"
column="name"
type="string"
/>

<property name="termType"
column="term_type"
type="string"
update="false"
insert="false"
/>

<property name="acc"
column="acc"
type="string"
/>

<property name="isObsolete"
column="is_obsolete"
type="integer"
/>

<property name="isRoot"
column="is_root"
type="integer"
/>

<set name="genes" table="term2gene_product" lazy="true" inverse="false">
<key column="term_id"/>
<many-to-many class="ca.mcgill.mcb.bias.hibernate.GO.GeneProduct"
column="gene_product_id"/>
</set>

<set name="parents" table="term2term" lazy="true">
<key column="term2_id"/>
<many-to-many class="ca.mcgill.mcb.bias.hibernate.GO.Term" column="term1_id"/>
</set>

<set name="children" table="term2term" lazy="true">
<key column="term1_id"/>
<many-to-many class="ca.mcgill.mcb.bias.hibernate.GO.Term" column="term2_id"/>
</set>

<subclass name="Component" discriminator-value="component">
<set name="proteinStates">
<key column="componentId"/>
<one-to-many class="ca.mcgill.mcb.bias.hibernate.bio.ProteinDomainState"/>

</set>

<set name="complexes">
<key column="compartmentId"/>
<one-to-many class="ca.mcgill.mcb.bias.hibernate.sig.Complex"/>
</set>
</subclass>

<subclass name="Process" discriminator-value="process">

<set name="interactions" table="Process2ProtProtInteraction"
lazy="true">
<key column="processId"/>
<many-to-many class="ca.mcgill.mcb.bias.hibernate.sig.ProtProtInteraction"
column="interactionId"/>
</set>

</subclass>

<subclass name="Function" discriminator-value="function">
<set name="proteinStates" table="Function2ProteinState" inverse="true">
<key column="functionId"/>
<many-to-many class="ca.mcgill.mcb.bias.hibernate.bio.ProteinDomainState"
column="protStateId"/>
</set>
</subclass>
</class>


Code between sessionFactory.openSession() and session.close():
My session code is abstracted away, but I am using the new AST parser....

Code:

//the method that causes the problem....

public List<Term> getFunctionTerms(Set<Term> terms)
  {
    ArrayList<Term> t=new ArrayList<Term>(terms);
    for(int i=0;i<t.size();i++){
      Term term=t.get(i);
      if(!t.get(i).getTermType().equals("molecular_function")){
        t.remove(i);
       
      }
     
    }
    return t;
   
  }


Full stack trace of any exception that occurs:
org.hibernate.WrongClassException: Object with id: 4173 was not of the specified subclass: ca.mcgill.mcb.bias.hibernate.GO.Term (Discriminator: biological_process)
at org.hibernate.loader.Loader.getInstanceClass(Loader.java:915)
at org.hibernate.loader.Loader.instanceNotYetLoaded(Loader.java:799)
at org.hibernate.loader.Loader.getRow(Loader.java:730)
at org.hibernate.loader.Loader.getRowFromResultSet(Loader.java:284)
at org.hibernate.loader.Loader.doQuery(Loader.java:378)
at org.hibernate.loader.Loader.doQueryAndInitializeNonLazyCollections(Loader.java:199)
at org.hibernate.loader.Loader.loadEntity(Loader.java:1221)
at org.hibernate.loader.EntityLoader.load(EntityLoader.java:137)
at org.hibernate.loader.EntityLoader.load(EntityLoader.java:123)
at org.hibernate.persister.BasicEntityPersister.load(BasicEntityPersister.java:2397)
at org.hibernate.event.DefaultLoadEventListener.loadFromDatasource(DefaultLoadEventListener.java:376)
at org.hibernate.event.DefaultLoadEventListener.doLoad(DefaultLoadEventListener.java:357)
at org.hibernate.event.DefaultLoadEventListener.load(DefaultLoadEventListener.java:160)
at org.hibernate.event.DefaultLoadEventListener.load(DefaultLoadEventListener.java:134)
at org.hibernate.event.DefaultLoadEventListener.onLoad(DefaultLoadEventListener.java:113)
at org.hibernate.impl.SessionImpl.immediateLoad(SessionImpl.java:621)
at org.hibernate.proxy.AbstractLazyInitializer.initialize(AbstractLazyInitializer.java:59)
at org.hibernate.proxy.AbstractLazyInitializer.getImplementation(AbstractLazyInitializer.java:80)
at org.hibernate.proxy.CGLIBLazyInitializer.intercept(CGLIBLazyInitializer.java:133)
at ca.mcgill.mcb.bias.hibernate.GO.Term$$EnhancerByCGLIB$$5a1aedb9.getTermType(<generated>)
at ca.mcgill.mcb.bias.libraries.geneOntology.PairwiseStatistic.getFunctionTerms(PairwiseStatistic.java:524)
at ca.mcgill.mcb.bias.libraries.geneOntology.PairwiseStatistic.getDistance(PairwiseStatistic.java:511)
at ca.mcgill.mcb.bias.modules.pimp.ERData.getGODistance(ERData.java:538)
at ca.mcgill.mcb.bias.modules.pimp.ERStatistics.printGODistances(ERStatistics.java:139)
at ca.mcgill.mcb.bias.modules.pimp.ERStatistics.main(ERStatistics.java:241)



Name and version of the database you are using:

MySQL

The generated SQL (show_sql=true):
it's a prepared statement:
74322 DEBUG SQL - select term0_.id as id0_, term0_.name as name101_0_, term0_.term_type as term2_101_0_, term0_.acc as acc101_0_, term0_.is_obsolete as is5_101_0_, term0_.is_root as is6_101_0_, term0_.term_type as term2_0_ from term term0_ where term0_.id=?


Debug level Hibernate log excerpt:
74321 DEBUG DefaultLoadEventListener - attempting to resolve: [ca.mcgill.mcb.bias.hibernate.GO.Term#2613]
74321 DEBUG DefaultLoadEventListener - object not resolved in any cache: [ca.mcgill.mcb.bias.hibernate.GO.Term#2613]
74321 DEBUG BasicEntityPersister - Materializing entity: [ca.mcgill.mcb.bias.hibernate.GO.Term#2613]
74322 DEBUG AbstractBatcher - about to open PreparedStatement (open PreparedStatements: 0, globally: 0)
74322 DEBUG SQL - select term0_.id as id0_, term0_.name as name101_0_, term0_.term_type as term2_101_0_, term0_.acc as acc101_0_, term0_.is_obsolete as is5_101_0_, term0_.is_root as is6_101_0_, term0_.term_type as term2_0_ from term term0_ where term0_.id=?
74322 DEBUG AbstractBatcher - preparing statement
74322 DEBUG IntegerType - binding '2613' to parameter: 1
74356 DEBUG AbstractBatcher - about to open ResultSet (open ResultSets: 0, globally: 0)
74357 DEBUG Loader - processing result set
74357 DEBUG Loader - result set row: 0
74357 DEBUG Loader - result row: EntityKey[ca.mcgill.mcb.bias.hibernate.GO.Term#2613]
74357 DEBUG StringType - returning 'molecular_function' as column: term2_0_
74362 DEBUG AbstractBatcher - about to close ResultSet (open ResultSets: 1, globally: 1)
74363 DEBUG AbstractBatcher - about to close PreparedStatement (open PreparedStatements: 1, globally: 1)
74363 DEBUG AbstractBatcher - closing statement
74364 INFO DefaultLoadEventListener - Error performing load command
org.hibernate.WrongClassException: Object with id: 2613 was not of the specified subclass: ca.mcgill.mcb.bias.hibernate.GO.Term (Discriminator: molecular_function)
at org.hibernate.loader.Loader.getInstanceClass(Loader.java:915)
at org.hibernate.loader.Loader.instanceNotYetLoaded(Loader.java:799)
at org.hibernate.loader.Loader.getRow(Loader.java:730)
at org.hibernate.loader.Loader.getRowFromResultSet(Loader.java:284)
at org.hibernate.loader.Loader.doQuery(Loader.java:378)
at org.hibernate.loader.Loader.doQueryAndInitializeNonLazyCollections(Loader.java:199)
at org.hibernate.loader.Loader.loadEntity(Loader.java:1221)
at org.hibernate.loader.EntityLoader.load(EntityLoader.java:137)
at org.hibernate.loader.EntityLoader.load(EntityLoader.java:123)
at org.hibernate.persister.BasicEntityPersister.load(BasicEntityPersister.java:2397)
at org.hibernate.event.DefaultLoadEventListener.loadFromDatasource(DefaultLoadEventListener.java:376)
at org.hibernate.event.DefaultLoadEventListener.doLoad(DefaultLoadEventListener.java:357)
at org.hibernate.event.DefaultLoadEventListener.load(DefaultLoadEventListener.java:160)
at org.hibernate.event.DefaultLoadEventListener.load(DefaultLoadEventListener.java:134)
at org.hibernate.event.DefaultLoadEventListener.onLoad(DefaultLoadEventListener.java:113)
at org.hibernate.impl.SessionImpl.immediateLoad(SessionImpl.java:621)
at org.hibernate.proxy.AbstractLazyInitializer.initialize(AbstractLazyInitializer.java:59)
at org.hibernate.proxy.AbstractLazyInitializer.getImplementation(AbstractLazyInitializer.java:80)
at org.hibernate.proxy.CGLIBLazyInitializer.intercept(CGLIBLazyInitializer.java:133)
at ca.mcgill.mcb.bias.hibernate.GO.Term$$EnhancerByCGLIB$$5a1aedb9.getTermType(<generated>)
at ca.mcgill.mcb.bias.libraries.geneOntology.PairwiseStatistic.getFunctionTerms(PairwiseStatistic.java:524)
at ca.mcgill.mcb.bias.libraries.geneOntology.PairwiseStatistic.getDistance(PairwiseStatistic.java:511)
at ca.mcgill.mcb.bias.modules.pimp.ERData.getGODistance(ERData.java:538)
at ca.mcgill.mcb.bias.modules.pimp.ERStatistics.printGODistances(ERStatistics.java:139)
at ca.mcgill.mcb.bias.modules.pimp.ERStatistics.main(ERStatistics.java:241)

[/code]
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shoe
 Post subject:
PostPosted: Thu Mar 10, 2005 6:42 pm 
Newbie

Joined: Mon Dec 13, 2004 5:56 pm
Posts: 12
Location: Montreal, QC
I found this same error with yet another method:

Code:
     private int getDBDistanceBetweenTerms(Term t1, Term t2) throws HibernateException
  {
    Integer dist=null;
   
    try{

    Query q=sess.createQuery("select gp.distance from GraphPath gp where (gp.term1=? and gp.term2=?) or (gp.term2=? and gp.term1=?)");

    q.setEntity(0,t1);
    q.setEntity(1,t2);
    q.setEntity(2,t1);
    q.setEntity(3,t2);

    dist=(Integer)q.uniqueResult();
...



This time the stack trace starts at the first 'setEntity'. Why is this happening?

-sara
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