hibernate-devel

[Hibernate] Failure to lazily initialize a collection

[Mark W. <mor...@SM...>]

Hi,

Can anyone tell me why I'm getting the following error?  The error I get 
with the current CVS build and the 1.1.4b build is different, but either 
way, I still don't understand what the problem is.


Current CVS build:

Hibernate: SELECT Refer0.referenceSequenceId, Pharm1.pharmgkbAccessionId 
AS pharmgkbAccessionId0, Pharm1.pharmgkbObjTypeId AS pharmgkbObjTypeId0, 
Pharm1.name AS name0, Pharm1.projectId AS projectId0,
Pharm1.modified_timestamp AS modified_timestamp0, 
Refer2.referenceSequenceId AS referenceSequenceId1, Refer2.start_gene AS 
start_gene1, Refer2.stop_gene AS stop_gene1, Refer2.sequence AS 
sequence1, Proje3.projectId AS projectId2, Proje3.projectName AS 
projectName2 FROM ReferenceSequenceGeneAssoc Refer0, PharmGKBObjects 
Pharm1, ReferenceSequences Refer2, Projects Proje3 WHERE Refer0.geneId = 
? AND
Refer0.referenceSequenceId=Pharm1.pharmgkbAccessionId(+) AND 
Pharm1.pharmgkbAccessionId=Refer2.referenceSequenceId(+) AND 
Pharm1.projectId=Proje3.projectId(+)
02:18:59,772 ERROR PersistentCollection:87 - Failed to lazily initialize 
a collection
java.lang.NullPointerException
        at cirrus.hibernate.LockMode.greaterThan(LockMode.java:30)
        at cirrus.hibernate.impl.SessionImpl.lock(SessionImpl.java:1121)
        at cirrus.hibernate.impl.SessionImpl.doLoad(SessionImpl.java:1412)
        at 
cirrus.hibernate.impl.SessionImpl.doLoadByClass(SessionImpl.java:1314)
        at 
cirrus.hibernate.impl.SessionImpl.internalLoadOneToOne(SessionImpl.java:1273)
        at 
cirrus.hibernate.type.OneToOneType.resolveIdentifier(OneToOneType.java:68)
        at 
cirrus.hibernate.impl.SessionImpl.initializeEntity(SessionImpl.java:1456)
        at cirrus.hibernate.loader.Loader.doFind(Loader.java:144)
        at cirrus.hibernate.loader.Loader.loadCollection(Loader.java:448)
        at 
cirrus.hibernate.loader.CollectionLoader.initialize(CollectionLoader.java:67)
        at 
cirrus.hibernate.impl.SessionImpl.initialize(SessionImpl.java:2222)
        at 
cirrus.hibernate.collections.PersistentCollection.initialize(PersistentCollection.java:83)
        at 
cirrus.hibernate.collections.PersistentCollection.read(PersistentCollection.java:53)
        at cirrus.hibernate.collections.Set.iterator(Set.java:134)
        at 
org.pharmgen.db.DbDocumentRoot.addAccessionObject(DbDocumentRoot.java:166)
        at 
org.pharmgen.xml.ParserEventHandler.startElement(ParserEventHandler.java:282)
        at 
org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source)
        at 
org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown 
Source)
        at 
org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatcher.dispatch(Unknown 
Source)
        at 
org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown 
Source)
        at org.apache.xerces.parsers.DTDConfiguration.parse(Unknown Source)
        at org.apache.xerces.parsers.DTDConfiguration.parse(Unknown Source)
        at org.apache.xerces.parsers.XMLParser.parse(Unknown Source)
        at org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source)
        at javax.xml.parsers.SAXParser.parse(Unknown Source)
        at javax.xml.parsers.SAXParser.parse(Unknown Source)
        at org.pharmgen.xml.Parser.parse(Parser.java:126)
        at test.XmlParser.main(XmlParser.java:44)


1.1.4b build:

Hibernate: SELECT Refer0.referenceSequenceId, Pharm1.pharmgkbAccessionId 
AS pharmgkbAccessionId0, Pharm1.pharmgkbObjTypeId AS pharmgkbObjTypeId0, 
Pharm1.name AS name0, Pharm1.projectId AS projectId0,
Pharm1.modified_timestamp AS modified_timestamp0, 
Refer2.referenceSequenceId AS referenceSequenceId1, Refer2.start_gene AS 
start_gene1, Refer2.stop_gene AS stop_gene1, Refer2.sequence AS 
sequence1, Proje3.projectId AS projectId2, Proje3.projectName AS 
projectName2 FROM ReferenceSequenceGeneAssoc Refer0, PharmGKBObjects 
Pharm1, ReferenceSequences Refer2, Projects Proje3 WHERE Refer0.geneId = 
? AND
Refer0.referenceSequenceId=Pharm1.pharmgkbAccessionId(+) AND 
Pharm1.pharmgkbAccessionId=Refer2.referenceSequenceId(+) AND 
Pharm1.projectId=Proje3.projectId(+)
02:30:50,484 ERROR PersistentCollection:87 - Failed to lazily initialize 
a collection
cirrus.hibernate.TransientObjectException: You tried to lock a transient 
instance
        at cirrus.hibernate.impl.SessionImpl.lock(SessionImpl.java:1113)
        at cirrus.hibernate.impl.SessionImpl.doLoad(SessionImpl.java:1404)
        at 
cirrus.hibernate.impl.SessionImpl.doLoadByClass(SessionImpl.java:1306)
        at 
cirrus.hibernate.impl.SessionImpl.internalLoadOneToOne(SessionImpl.java:1265)
        at 
cirrus.hibernate.type.OneToOneType.resolveIdentifier(OneToOneType.java:68)
        at 
cirrus.hibernate.impl.SessionImpl.initializeEntity(SessionImpl.java:1448)
        at cirrus.hibernate.loader.Loader.doFind(Loader.java:144)
        at cirrus.hibernate.loader.Loader.loadCollection(Loader.java:448)
        at 
cirrus.hibernate.loader.CollectionLoader.initialize(CollectionLoader.java:67)
        at 
cirrus.hibernate.impl.SessionImpl.initialize(SessionImpl.java:2213)
        at 
cirrus.hibernate.collections.PersistentCollection.initialize(PersistentCollection.java:83)
        at 
cirrus.hibernate.collections.PersistentCollection.read(PersistentCollection.java:53)
        at cirrus.hibernate.collections.Set.iterator(Set.java:134)
        at 
org.pharmgen.db.DbDocumentRoot.addAccessionObject(DbDocumentRoot.java:166)
        at 
org.pharmgen.xml.ParserEventHandler.startElement(ParserEventHandler.java:282)
        at 
org.apache.xerces.parsers.AbstractSAXParser.startElement(Unknown Source)
        at 
org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanStartElement(Unknown 
Source)
        at 
org.apache.xerces.impl.XMLDocumentFragmentScannerImpl$FragmentContentDispatcher.dispatch(Unknown 
Source)
        at 
org.apache.xerces.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown 
Source)
        at org.apache.xerces.parsers.DTDConfiguration.parse(Unknown Source)
        at org.apache.xerces.parsers.DTDConfiguration.parse(Unknown Source)
        at org.apache.xerces.parsers.XMLParser.parse(Unknown Source)
        at org.apache.xerces.parsers.AbstractSAXParser.parse(Unknown Source)
        at javax.xml.parsers.SAXParser.parse(Unknown Source)
        at javax.xml.parsers.SAXParser.parse(Unknown Source)
        at org.pharmgen.xml.Parser.parse(Parser.java:126)
        at test.XmlParser.main(XmlParser.java:44)


Thanks,
-Mark

Re: [Hibernate] Failure to lazily initialize a collection

[Mark W. <mor...@SM...>]

A few more details on the exception:

The session is still open when I try to access the lazily initialized 
collection.   The code is as simple as this:

      Gene gene = (Gene)session.load(DbGene.class, "PA6222");
      Set refSeqs = gene.getReferenceSequences();
      Iterator it = refSeqs.iterator();

Which triggers the exception.  The NPE in the CVS build looks like a bug 
in the new locking code, but that doesn't explain why I'm getting this 
exception with the 1.1.4b build.

Here's the mapping I'm using for the set:

    <set role="referenceSequences" table="ReferenceSequenceGeneAssoc" 
lazy="true" cascade="all">
      <key column="geneId" type="string" />
      <many-to-many column="referenceSequenceId" 
class="org.pharmgen.db.DbReferenceSequence" />
    </set>

Anyone have any idea what the problem might be?

Thanks,
-Mark

Re: [Hibernate] Failure to lazily initialize a collection

[Mark W. <mor...@SM...>]

Mark Woon wrote:

> Here's the mapping I'm using for the set:
>
>    <set role="referenceSequences" table="ReferenceSequenceGeneAssoc" 
> lazy="true" cascade="all">
>      <key column="geneId" type="string" />
>      <many-to-many column="referenceSequenceId" 
> class="org.pharmgen.db.DbReferenceSequence" />
>    </set>


And if I change it to lazy="false," I get:

java.lang.NullPointerException
        at cirrus.hibernate.LockMode.greaterThan(LockMode.java:30)
        at cirrus.hibernate.impl.SessionImpl.lock(SessionImpl.java:1121)
        at cirrus.hibernate.impl.SessionImpl.doLoad(SessionImpl.java:1412)
        at 
cirrus.hibernate.impl.SessionImpl.doLoadByClass(SessionImpl.java:1314)
        at 
cirrus.hibernate.impl.SessionImpl.internalLoadOneToOne(SessionImpl.java:1273)
        at 
cirrus.hibernate.type.OneToOneType.resolveIdentifier(OneToOneType.java:68)
        at 
cirrus.hibernate.impl.SessionImpl.initializeEntity(SessionImpl.java:1456)
        at cirrus.hibernate.loader.Loader.doFind(Loader.java:144)
        at cirrus.hibernate.loader.Loader.loadCollection(Loader.java:448)
        at 
cirrus.hibernate.loader.CollectionLoader.initialize(CollectionLoader.java:67)
        at 
cirrus.hibernate.impl.SessionImpl.initialize(SessionImpl.java:2222)
        at 
cirrus.hibernate.collections.PersistentCollection.getInitialValue(PersistentCollection.java:69)
        at 
cirrus.hibernate.type.PersistentCollectionType.getCollection(PersistentCollectionType.java:69)
        at 
cirrus.hibernate.type.PersistentCollectionType.resolveIdentifier(PersistentCollectionType.java:198)
        at 
cirrus.hibernate.impl.SessionImpl.initializeEntity(SessionImpl.java:1456)
        at cirrus.hibernate.loader.Loader.doFind(Loader.java:171)
        at cirrus.hibernate.loader.Loader.loadEntity(Loader.java:435)
        at cirrus.hibernate.loader.EntityLoader.load(EntityLoader.java:61)
        at 
cirrus.hibernate.persister.EntityPersister.load(EntityPersister.java:406)
        at cirrus.hibernate.impl.SessionImpl.doLoad(SessionImpl.java:1440)
        at 
cirrus.hibernate.impl.SessionImpl.doLoadByClass(SessionImpl.java:1314)
        at cirrus.hibernate.impl.SessionImpl.load(SessionImpl.java:1253)
        at misc.Test.test(Test.java:61)
        at misc.Test.main(Test.java:40)

With the 1.1.4b build I get:

cirrus.hibernate.TransientObjectException: You tried to lock a transient 
instance
        at cirrus.hibernate.impl.SessionImpl.lock(SessionImpl.java:1113)
        at cirrus.hibernate.impl.SessionImpl.doLoad(SessionImpl.java:1404)
        at 
cirrus.hibernate.impl.SessionImpl.doLoadByClass(SessionImpl.java:1306)
        at 
cirrus.hibernate.impl.SessionImpl.internalLoadOneToOne(SessionImpl.java:1265)
        at 
cirrus.hibernate.type.OneToOneType.resolveIdentifier(OneToOneType.java:68)
        at 
cirrus.hibernate.impl.SessionImpl.initializeEntity(SessionImpl.java:1448)
        at cirrus.hibernate.loader.Loader.doFind(Loader.java:144)
        at cirrus.hibernate.loader.Loader.loadCollection(Loader.java:448)
        at 
cirrus.hibernate.loader.CollectionLoader.initialize(CollectionLoader.java:67)
        at 
cirrus.hibernate.impl.SessionImpl.initialize(SessionImpl.java:2213)
        at 
cirrus.hibernate.collections.PersistentCollection.getInitialValue(PersistentCollection.java:69)
        at 
cirrus.hibernate.type.PersistentCollectionType.getCollection(PersistentCollectionType.java:69)
        at 
cirrus.hibernate.type.PersistentCollectionType.resolveIdentifier(PersistentCollectionType.java:198)
        at 
cirrus.hibernate.impl.SessionImpl.initializeEntity(SessionImpl.java:1448)
        at cirrus.hibernate.loader.Loader.doFind(Loader.java:171)
        at cirrus.hibernate.loader.Loader.loadEntity(Loader.java:435)
        at cirrus.hibernate.loader.EntityLoader.load(EntityLoader.java:61)
        at 
cirrus.hibernate.persister.EntityPersister.load(EntityPersister.java:666)
        at cirrus.hibernate.impl.SessionImpl.doLoad(SessionImpl.java:1432)
        at 
cirrus.hibernate.impl.SessionImpl.doLoadByClass(SessionImpl.java:1306)
        at cirrus.hibernate.impl.SessionImpl.load(SessionImpl.java:1245)
        at misc.Test.test(Test.java:61)
        at misc.Test.main(Test.java:40)


BTW, all this works with 1.3!

-Mark

Re: [Hibernate] Failure to lazily initialize a collection

[Gavin K. <ga...@ap...>]

I think I've fixed this problem now. (But I did it without first reproducing
the bug.)

Mark, would you do me a favor, please:
(1) check the fix works
(2) add a regression test to FooBarTest that

Thanks....

Gavin

----- Original Message -----
From: "Mark Woon" <mor...@SM...>
Cc: "Hibernate Mailing List" <hib...@li...>
Sent: Saturday, October 12, 2002 11:28 AM
Subject: Re: [Hibernate] Failure to lazily initialize a collection


> Mark Woon wrote:
>
> > Here's the mapping I'm using for the set:
> >
> >    <set role="referenceSequences" table="ReferenceSequenceGeneAssoc"
> > lazy="true" cascade="all">
> >      <key column="geneId" type="string" />
> >      <many-to-many column="referenceSequenceId"
> > class="org.pharmgen.db.DbReferenceSequence" />
> >    </set>
>
>
> And if I change it to lazy="false," I get:
>
> java.lang.NullPointerException
>         at cirrus.hibernate.LockMode.greaterThan(LockMode.java:30)
>         at cirrus.hibernate.impl.SessionImpl.lock(SessionImpl.java:1121)
>         at cirrus.hibernate.impl.SessionImpl.doLoad(SessionImpl.java:1412)
>         at
> cirrus.hibernate.impl.SessionImpl.doLoadByClass(SessionImpl.java:1314)
>         at
>
cirrus.hibernate.impl.SessionImpl.internalLoadOneToOne(SessionImpl.java:1273
)
>         at
> cirrus.hibernate.type.OneToOneType.resolveIdentifier(OneToOneType.java:68)
>         at
> cirrus.hibernate.impl.SessionImpl.initializeEntity(SessionImpl.java:1456)
>         at cirrus.hibernate.loader.Loader.doFind(Loader.java:144)
>         at cirrus.hibernate.loader.Loader.loadCollection(Loader.java:448)
>         at
>
cirrus.hibernate.loader.CollectionLoader.initialize(CollectionLoader.java:67
)
>         at
> cirrus.hibernate.impl.SessionImpl.initialize(SessionImpl.java:2222)
>         at
>
cirrus.hibernate.collections.PersistentCollection.getInitialValue(Persistent
Collection.java:69)
>         at
>
cirrus.hibernate.type.PersistentCollectionType.getCollection(PersistentColle
ctionType.java:69)
>         at
>
cirrus.hibernate.type.PersistentCollectionType.resolveIdentifier(PersistentC
ollectionType.java:198)
>         at
> cirrus.hibernate.impl.SessionImpl.initializeEntity(SessionImpl.java:1456)
>         at cirrus.hibernate.loader.Loader.doFind(Loader.java:171)
>         at cirrus.hibernate.loader.Loader.loadEntity(Loader.java:435)
>         at cirrus.hibernate.loader.EntityLoader.load(EntityLoader.java:61)
>         at
> cirrus.hibernate.persister.EntityPersister.load(EntityPersister.java:406)
>         at cirrus.hibernate.impl.SessionImpl.doLoad(SessionImpl.java:1440)
>         at
> cirrus.hibernate.impl.SessionImpl.doLoadByClass(SessionImpl.java:1314)
>         at cirrus.hibernate.impl.SessionImpl.load(SessionImpl.java:1253)
>         at misc.Test.test(Test.java:61)
>         at misc.Test.main(Test.java:40)
>
> With the 1.1.4b build I get:
>
> cirrus.hibernate.TransientObjectException: You tried to lock a transient
> instance
>         at cirrus.hibernate.impl.SessionImpl.lock(SessionImpl.java:1113)
>         at cirrus.hibernate.impl.SessionImpl.doLoad(SessionImpl.java:1404)
>         at
> cirrus.hibernate.impl.SessionImpl.doLoadByClass(SessionImpl.java:1306)
>         at
>
cirrus.hibernate.impl.SessionImpl.internalLoadOneToOne(SessionImpl.java:1265
)
>         at
> cirrus.hibernate.type.OneToOneType.resolveIdentifier(OneToOneType.java:68)
>         at
> cirrus.hibernate.impl.SessionImpl.initializeEntity(SessionImpl.java:1448)
>         at cirrus.hibernate.loader.Loader.doFind(Loader.java:144)
>         at cirrus.hibernate.loader.Loader.loadCollection(Loader.java:448)
>         at
>
cirrus.hibernate.loader.CollectionLoader.initialize(CollectionLoader.java:67
)
>         at
> cirrus.hibernate.impl.SessionImpl.initialize(SessionImpl.java:2213)
>         at
>
cirrus.hibernate.collections.PersistentCollection.getInitialValue(Persistent
Collection.java:69)
>         at
>
cirrus.hibernate.type.PersistentCollectionType.getCollection(PersistentColle
ctionType.java:69)
>         at
>
cirrus.hibernate.type.PersistentCollectionType.resolveIdentifier(PersistentC
ollectionType.java:198)
>         at
> cirrus.hibernate.impl.SessionImpl.initializeEntity(SessionImpl.java:1448)
>         at cirrus.hibernate.loader.Loader.doFind(Loader.java:171)
>         at cirrus.hibernate.loader.Loader.loadEntity(Loader.java:435)
>         at cirrus.hibernate.loader.EntityLoader.load(EntityLoader.java:61)
>         at
> cirrus.hibernate.persister.EntityPersister.load(EntityPersister.java:666)
>         at cirrus.hibernate.impl.SessionImpl.doLoad(SessionImpl.java:1432)
>         at
> cirrus.hibernate.impl.SessionImpl.doLoadByClass(SessionImpl.java:1306)
>         at cirrus.hibernate.impl.SessionImpl.load(SessionImpl.java:1245)
>         at misc.Test.test(Test.java:61)
>         at misc.Test.main(Test.java:40)
>
>
> BTW, all this works with 1.3!
>
> -Mark
>
>
>
> -------------------------------------------------------
> This sf.net email is sponsored by:ThinkGeek
> Welcome to geek heaven.
> http://thinkgeek.com/sf
> _______________________________________________
> hibernate-devel mailing list
> hib...@li...
> https://lists.sourceforge.net/lists/listinfo/hibernate-devel

Re: [Hibernate] Failure to lazily initialize a collection

[Gavin K. <ga...@ap...>]

I knew about an exception in the new Locking code in 1.1.4, 1.1.4b and I
fixed it in CVS. But I must have missed something. Thanks for picking up on
this, Mark. I'll look into it ASAP.

----- Original Message -----
From: "Mark Woon" <mor...@SM...>
Cc: "Hibernate Mailing List" <hib...@li...>
Sent: Saturday, October 12, 2002 11:09 AM
Subject: Re: [Hibernate] Failure to lazily initialize a collection


> A few more details on the exception:
>
> The session is still open when I try to access the lazily initialized
> collection.   The code is as simple as this:
>
>       Gene gene = (Gene)session.load(DbGene.class, "PA6222");
>       Set refSeqs = gene.getReferenceSequences();
>       Iterator it = refSeqs.iterator();
>
> Which triggers the exception.  The NPE in the CVS build looks like a bug
> in the new locking code, but that doesn't explain why I'm getting this
> exception with the 1.1.4b build.
>
> Here's the mapping I'm using for the set:
>
>     <set role="referenceSequences" table="ReferenceSequenceGeneAssoc"
> lazy="true" cascade="all">
>       <key column="geneId" type="string" />
>       <many-to-many column="referenceSequenceId"
> class="org.pharmgen.db.DbReferenceSequence" />
>     </set>
>
> Anyone have any idea what the problem might be?
>
> Thanks,
> -Mark
>
>
>
>
> -------------------------------------------------------
> This sf.net email is sponsored by:ThinkGeek
> Welcome to geek heaven.
> http://thinkgeek.com/sf
> _______________________________________________
> hibernate-devel mailing list
> hib...@li...
> https://lists.sourceforge.net/lists/listinfo/hibernate-devel