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Posted to issues@jena.apache.org by "agustaf9 (via GitHub)" <gi...@apache.org> on 2024/08/01 22:12:05 UTC
[I] org.apache.jena.fuseki.servlets.ActionErrorException: Cannot read field "succ" because "n" is null [jena]
agustaf9 opened a new issue, #2616:
URL: https://github.com/apache/jena/issues/2616
### Version
5.0.0
### What happened?
# Steps to Reproduce
1. Create a new dataset via `curl -X POST 'http://localhost:3030/$/datasets' --upload-file ./dsCon
figTemplate.ttl --header "Content-Type: text/turtle"` where `dsConfigTemplate.ttl` is:
```
# https://apothem.blog/apache-jena-fuseki-adding-reasoning-and-full-text-search-capabilities-to-a-dataset.html
PREFIX : <http://base/#>
PREFIX fuseki: <http://jena.apache.org/fuseki#>
PREFIX ja: <http://jena.hpl.hp.com/2005/11/Assembler#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX tdb2: <http://jena.apache.org/2016/tdb#>
:tdb_dataset_readwrite
rdf:type tdb2:DatasetTDB2;
tdb2:location "/fuseki/databases/ds" . # <-- Change ds to the name of the datastore
:service_tdb_all rdf:type fuseki:Service;
rdfs:label "TDB2 ds";
fuseki:dataset :dataset ;
fuseki:endpoint [ fuseki:name "get";
fuseki:operation fuseki:gsp-r
];
fuseki:endpoint [ fuseki:operation fuseki:gsp-rw ];
fuseki:endpoint [ fuseki:operation fuseki:update ];
fuseki:endpoint [ fuseki:name "update";
fuseki:operation fuseki:update
];
fuseki:endpoint [ fuseki:name "sparql";
fuseki:operation fuseki:query
];
fuseki:endpoint [ fuseki:operation fuseki:query ];
fuseki:endpoint [ fuseki:name "data";
fuseki:operation fuseki:gsp-rw
];
fuseki:endpoint [ fuseki:name "query";
fuseki:operation fuseki:query
];
fuseki:name "ds" . # <-- Change ds to the name of the datastore
:dataset a ja:RDFDataset ;
ja:defaultGraph :model_inf .
:model_inf a ja:InfModel ;
ja:baseModel :graph ;
ja:reasoner [
ja:reasonerURL <http://jena.hpl.hp.com/2003/RDFSExptRuleReasoner>
] .
:graph rdf:type tdb2:GraphTDB ;
tdb2:dataset :tdb_dataset_readwrite ;
.
```
2. Via the web interface's edit tab, replace all the triples in the default graph with:
```
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
rdfs:range rdf:type rdf:Property , rdfs:Resource;
rdfs:comment "A range of the subject property.";
rdfs:domain rdf:Property;
rdfs:isDefinedBy rdfs:;
rdfs:label "range";
rdfs:range rdfs:Class;
rdfs:seeAlso rdfs:;
rdfs:subPropertyOf rdfs:range .
rdfs:subPropertyOf rdf:type rdf:Property , rdfs:Resource;
rdfs:comment "The subject is a subproperty of a property.";
rdfs:domain rdf:Property;
rdfs:isDefinedBy rdfs:;
rdfs:label "subPropertyOf";
rdfs:range rdf:Property;
rdfs:seeAlso rdfs:;
rdfs:subPropertyOf rdfs:subPropertyOf .
```
3. In the query tab of the web interface, change the `query` endpoint to `update` and run this query:
```
DELETE {?s ?p ?o} WHERE { VALUES ?s{ <http://www.w3.org/2000/01/rdf-schema#range> <http://www.w3.org/2000/01/rdf-schema#subPropertyOf> }
?s ?p ?o .
}
```
4. Observe Error `Cannot read field "succ" because "n" is null`
### Relevant output and stacktrace
```shell
org.apache.jena.fuseki.servlets.ActionErrorException: Cannot read field "succ" because "n" is null
at org.apache.jena.fuseki.servlets.ServletOps.errorOccurred(ServletOps.java:275) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.SPARQL_Update.execute(SPARQL_Update.java:259) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.SPARQL_Update.executeBody(SPARQL_Update.java:191) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.SPARQL_Update.execute(SPARQL_Update.java:106) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.ActionService.executeLifecycle(ActionService.java:58) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.SPARQL_Update.execPost(SPARQL_Update.java:91) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.ActionProcessor.process(ActionProcessor.java:34) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.ActionBase.process(ActionBase.java:54) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.ActionExecLib.execActionSub(ActionExecLib.java:127) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.ActionExecLib.execAction(ActionExecLib.java:101) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.server.Dispatcher.dispatchAction(Dispatcher.java:240) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.server.Dispatcher.process(Dispatcher.java:230) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.server.Dispatcher.dispatch(Dispatcher.java:148) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.FusekiFilter.doFilter(FusekiFilter.java:49) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.ee10.servlet.FilterHolder.doFilter(FilterHolder.java:205) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.ee10.servlet.ServletHandler$Chain.doFilter(ServletHandler.java:1586) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:65) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.AdviceFilter.executeChain(AdviceFilter.java:109) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.AdviceFilter.doFilterInternal(AdviceFilter.java:138) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:156) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:70) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.AdviceFilter.executeChain(AdviceFilter.java:109) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.AdviceFilter.doFilterInternal(AdviceFilter.java:138) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:156) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:70) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.AbstractShiroFilter.executeChain(AbstractShiroFilter.java:463) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.AbstractShiroFilter.lambda$doFilterInternal$0(AbstractShiroFilter.java:378) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.subject.support.SubjectCallable.doCall(SubjectCallable.java:91) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.subject.support.SubjectCallable.call(SubjectCallable.java:84) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.subject.support.DelegatingSubject.execute(DelegatingSubject.java:389) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.AbstractShiroFilter.doFilterInternal(AbstractShiroFilter.java:376) ~[fuseki-server.jar:5.0.0]
at org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:156) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.ee10.servlet.FilterHolder.doFilter(FilterHolder.java:205) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.ee10.servlet.ServletHandler$Chain.doFilter(ServletHandler.java:1586) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.CrossOriginFilter.handle(CrossOriginFilter.java:348) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.CrossOriginFilter.doFilter(CrossOriginFilter.java:301) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.ee10.servlet.FilterHolder.doFilter(FilterHolder.java:208) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.ee10.servlet.ServletHandler$Chain.doFilter(ServletHandler.java:1586) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.ee10.servlet.ServletHandler$MappedServlet.handle(ServletHandler.java:1547) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.ee10.servlet.ServletChannel.dispatch(ServletChannel.java:814) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.ee10.servlet.ServletChannel.handle(ServletChannel.java:431) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.ee10.servlet.ServletHandler.handle(ServletHandler.java:464) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:571) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.ee10.servlet.SessionHandler.handle(SessionHandler.java:703) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.server.handler.ContextHandler.handle(ContextHandler.java:765) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.server.handler.gzip.GzipHandler.handle(GzipHandler.java:597) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.server.Server.handle(Server.java:179) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.server.internal.HttpChannelState$HandlerInvoker.run(HttpChannelState.java:619) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.server.internal.HttpConnection.onFillable(HttpConnection.java:411) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:322) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:99) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.io.SelectableChannelEndPoint$1.run(SelectableChannelEndPoint.java:53) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.util.thread.strategy.AdaptiveExecutionStrategy.runTask(AdaptiveExecutionStrategy.java:478) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.util.thread.strategy.AdaptiveExecutionStrategy.consumeTask(AdaptiveExecutionStrategy.java:441) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.util.thread.strategy.AdaptiveExecutionStrategy.tryProduce(AdaptiveExecutionStrategy.java:293) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.util.thread.strategy.AdaptiveExecutionStrategy.run(AdaptiveExecutionStrategy.java:201) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:410) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:971) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.util.thread.QueuedThreadPool$Runner.doRunJob(QueuedThreadPool.java:1201) ~[fuseki-server.jar:5.0.0]
at org.eclipse.jetty.util.thread.QueuedThreadPool$Runner.run(QueuedThreadPool.java:1156) ~[fuseki-server.jar:5.0.0]
at java.base/java.lang.Thread.run(Unknown Source) [?:?]
Caused by: java.lang.NullPointerException: Cannot read field "succ" because "n" is null
at org.apache.jena.reasoner.transitiveReasoner.TransitiveGraphCache.processDeletes(TransitiveGraphCache.java:439) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.reasoner.transitiveReasoner.TransitiveGraphCache.find(TransitiveGraphCache.java:546) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.reasoner.transitiveReasoner.TransitiveEngine.cacheSubPropUtility(TransitiveEngine.java:385) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.reasoner.transitiveReasoner.TransitiveEngine.delete(TransitiveEngine.java:276) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.reasoner.rulesys.FBRuleInfGraph.performDelete(FBRuleInfGraph.java:658) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.graph.impl.GraphBase.delete(GraphBase.java:181) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.sparql.core.DatasetGraphCollection.delete(DatasetGraphCollection.java:53) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.sparql.modify.UpdateEngineWorker.deleteFromDatasetGrap
14:14:38.180 › Fuseki: h(UpdateEngineWorker.java:506) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.sparql.modify.UpdateEngineWorker.lambda$execDelete$8(UpdateEngineWorker.java:474) ~[fuseki-server.jar:5.0.0]
at java.base/java.util.ArrayList$Itr.forEachRemaining(Unknown Source) ~[?:?]
at org.apache.jena.atlas.iterator.IteratorFlatMap.lambda$forEachRemaining$0(IteratorFlatMap.java:94) ~[fuseki-server.jar:5.0.0]
at java.base/java.util.ArrayList$Itr.forEachRemaining(Unknown Source) ~[?:?]
at org.apache.jena.atlas.iterator.IteratorFlatMap.forEachRemaining(IteratorFlatMap.java:90) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.sparql.modify.UpdateEngineWorker.execDelete(UpdateEngineWorker.java:474) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.sparql.modify.UpdateEngineWorker.execDelete(UpdateEngineWorker.java:463) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.sparql.modify.UpdateEngineWorker.visit(UpdateEngineWorker.java:384) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.sparql.modify.request.UpdateModify.visit(UpdateModify.java:100) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.sparql.modify.UpdateVisitorSink.send(UpdateVisitorSink.java:45) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.sparql.modify.UpdateVisitorSink.send(UpdateVisitorSink.java:31) ~[fuseki-server.jar:5.0.0]
at java.base/java.util.ArrayList$Itr.forEachRemaining(Unknown Source) ~[?:?]
at java.base/java.util.Collections$UnmodifiableCollection$1.forEachRemaining(Unknown Source) ~[?:?]
at org.apache.jena.atlas.iterator.Iter.sendToSink(Iter.java:776) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.sparql.modify.UpdateProcessorBase.execute(UpdateProcessorBase.java:60) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.sparql.exec.UpdateExecDataset.execute(UpdateExecDataset.java:37) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.update.UpdateAction.execute$(UpdateAction.java:230) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.update.UpdateAction.execute(UpdateAction.java:195) ~[fuseki-server.jar:5.0.0]
at org.apache.jena.fuseki.servlets.SPARQL_Update.execute(SPARQL_Update.java:231) ~[fuseki-server.jar:5.0.0]
... 59 more
[2024-08-01 14:14:38] Fuseki INFO [304] 500 Server Error (207 ms)
```
### Are you interested in making a pull request?
No
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Re: [I] org.apache.jena.fuseki.servlets.ActionErrorException: Cannot read field "succ" because "n" is null [jena]
Posted by "afs (via GitHub)" <gi...@apache.org>.
afs commented on issue #2616:
URL: https://github.com/apache/jena/issues/2616#issuecomment-2265076412
Hi @agustaf9,
Thanks for the complete report.
I've managed to reproduce the problem at my end.
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Re: [I] org.apache.jena.fuseki.servlets.ActionErrorException: Cannot read field "succ" because "n" is null [jena]
Posted by "afs (via GitHub)" <gi...@apache.org>.
afs commented on issue #2616:
URL: https://github.com/apache/jena/issues/2616#issuecomment-2285844673
Reproduced outside Fuseki and reduced to smaller data.
The NPE occurs on the attempt to delete <code>rdfs:range rdfs:subPropertyOf rdfs:range</code>.
```java
public static void testCaseGH2616() {
String PREFIXES = """
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
""";
String queryString = PREFIXES + """
SELECT * {
VALUES ?s { rdfs:range rdfs:subPropertyOf }
?s ?p ?o .
}
""";
String updateString = PREFIXES + """
DELETE {?s ?p ?o}
WHERE {
VALUES ?s {
## Only this order, both needed, one single operation.
rdfs:range
rdfs:subPropertyOf
}
?s ?p ?o .
## Exclude this and there is no NPE
##FILTER ( ! ( ?s = rdfs:range && ?p = rdfs:subPropertyOf && ?o = rdfs:range ) )
## No effect - this isn't reached in the gathered triples to delete.
##FILTER ( ! ( ?s = rdfs:subPropertyOf && ?p = rdf:type && ?o = rdf:Property ) )
}
""";
String data = PREFIXES + """
## Triple that triggers the problem.
rdfs:range rdfs:subPropertyOf rdfs:range .
## Must be rdf:type rdf:Property
rdfs:subPropertyOf rdf:type rdf:Property .
""";
Model base = RDFParser.fromString(data, Lang.TTL).toModel();
InfModel inf = ModelFactory.createRDFSModel(base);
// This is the delete order
System.out.println("==== Deletes preview:");
try ( QueryExecution qExec = QueryExecution.model(inf).query(queryString).build()) {
ResultSetFormatter.out(qExec.execSelect(),qExec.getQuery());
}
System.out.println("==== Update");
System.out.flush();
UpdateExecution uExec = UpdateExecution.model(inf).update(updateString).build();
uExec.execute();
System.out.println("DONE");
}
```
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