Recorded as JENA-1643
On 29/11/2018 18:58, Andy Seaborne wrote:
Brad,
Thanks for the report. Could you raise a JIRA ticket please? It's a bug.
The BaseInfGraph.clear should be inside a transaction and somehow that's
getting missed.
Other updates work (e.g. insert data) so it's specific to "clear"
somehow. It was supposed to be fixed at JENA-1492 which is 3.7.0.
Andy
On 29/11/2018 15:07, Brad Stallion wrote:
Hi All,
I'm using Fuseki 3.9.0.
I have a TDB-backed graph. Configuration file is attached.
Everything works, including inference on triples added incrementally.
I'd like to reset the TDB content.
The SPARQL directive "DELETE { ?s ?p ?o } WHERE { ?s ?p ?o }" is too slow.
The directive "CLEAR ALL", once I've put something in the TDB, gives
the following error:
org.apache.jena.tdb.TDBException: Read-only block manager
at
org.apache.jena.tdb.base.block.BlockMgrReadonly.beginUpdate(BlockMgrReadonly.java:33)
at
org.apache.jena.tdb.base.page.PageBlockMgr.startUpdate(PageBlockMgr.java:131)
at
org.apache.jena.tdb.index.bplustree.BPlusTree.startUpdateBlkMgr(BPlusTree.java:404)
at
org.apache.jena.tdb.index.bplustree.BPlusTree.deleteAndReturnOld(BPlusTree.java:339)
at
org.apache.jena.tdb.index.bplustree.BPlusTree.delete(BPlusTree.java:335)
at
org.apache.jena.tdb.store.tupletable.TupleIndexRecord.performDelete(TupleIndexRecord.java:69)
at
org.apache.jena.tdb.store.tupletable.TupleIndexBase.delete(TupleIndexBase.java:74)
at
org.apache.jena.tdb.store.tupletable.TupleTable.delete(TupleTable.java:148)
at
org.apache.jena.tdb.store.DatasetGraphTDB.deleteAny(DatasetGraphTDB.java:239)
at org.apache.jena.tdb.store.GraphTDB.clear(GraphTDB.java:174)
at org.apache.jena.reasoner.BaseInfGraph.clear(BaseInfGraph.java:155)
at
org.apache.jena.sparql.modify.UpdateEngineWorker.execDropClear(UpdateEngineWorker.java:107)
at
org.apache.jena.sparql.modify.UpdateEngineWorker.execDropClear(UpdateEngineWorker.java:87)
at
org.apache.jena.sparql.modify.UpdateEngineWorker.visit(UpdateEngineWorker.java:83)
at
org.apache.jena.sparql.modify.request.UpdateClear.visit(UpdateClear.java:35)
at
org.apache.jena.sparql.modify.UpdateVisitorSink.send(UpdateVisitorSink.java:46)
at
org.apache.jena.sparql.modify.UpdateVisitorSink.send(UpdateVisitorSink.java:26)
at org.apache.jena.atlas.iterator.Iter.sendToSink(Iter.java:562)
at org.apache.jena.atlas.iterator.Iter.sendToSink(Iter.java:569)
at
org.apache.jena.sparql.modify.UpdateProcessorBase.execute(UpdateProcessorBase.java:59)
at org.apache.jena.update.UpdateAction.execute$(UpdateAction.java:228)
at org.apache.jena.update.UpdateAction.execute(UpdateAction.java:194)
at
org.apache.jena.fuseki.servlets.SPARQL_Update.execute(SPARQL_Update.java:235)
at
org.apache.jena.fuseki.servlets.SPARQL_Update.executeForm(SPARQL_Update.java:204)
at
org.apache.jena.fuseki.servlets.SPARQL_Update.perform(SPARQL_Update.java:109)
at
org.apache.jena.fuseki.servlets.ActionService.executeLifecycle(ActionService.java:183)
at
org.apache.jena.fuseki.servlets.ActionService.execCommonWorker(ActionService.java:98)
at org.apache.jena.fuseki.servlets.ActionBase.doCommon(ActionBase.java:74)
at
org.apache.jena.fuseki.servlets.FusekiFilter.doFilter(FusekiFilter.java:73)
at
org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1642)
at
org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:61)
at
org.apache.shiro.web.servlet.AdviceFilter.executeChain(AdviceFilter.java:108)
at
org.apache.shiro.web.servlet.AdviceFilter.doFilterInternal(AdviceFilter.java:137)
at
org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)
at
org.apache.shiro.web.servlet.ProxiedFilterChain.doFilter(ProxiedFilterChain.java:66)
at
org.apache.shiro.web.servlet.AbstractShiroFilter.executeChain(AbstractShiroFilter.java:449)
at
org.apache.shiro.web.servlet.AbstractShiroFilter$1.call(AbstractShiroFilter.java:365)
at
org.apache.shiro.subject.support.SubjectCallable.doCall(SubjectCallable.java:90)
at
org.apache.shiro.subject.support.SubjectCallable.call(SubjectCallable.java:83)
at
org.apache.shiro.subject.support.DelegatingSubject.execute(DelegatingSubject.java:383)
at
org.apache.shiro.web.servlet.AbstractShiroFilter.doFilterInternal(AbstractShiroFilter.java:362)
at
org.apache.shiro.web.servlet.OncePerRequestFilter.doFilter(OncePerRequestFilter.java:125)
at
org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1642)
at
org.apache.jena.fuseki.servlets.CrossOriginFilter.handle(CrossOriginFilter.java:285)
at
org.apache.jena.fuseki.servlets.CrossOriginFilter.doFilter(CrossOriginFilter.java:248)
at
org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1634)
at
org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:533)
at
org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:146)
at
org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:548)
at
org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132)
at
org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:257)
at
org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:1595)
at
org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:255)
at
org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1340)
at
org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:203)
at
org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:473)
at
org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:1564)
at
org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:201)
at
org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1242)
at
org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:144)
at
org.eclipse.jetty.server.handler.gzip.GzipHandler.handle(GzipHandler.java:690)
at
org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132)
at org.eclipse.jetty.server.Server.handle(Server.java:503)
at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:364)
at
org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:260)
at
org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:305)
at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:103)
at org.eclipse.jetty.io.ChannelEndPoint$2.run(ChannelEndPoint.java:118)
at
org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.runTask(EatWhatYouKill.java:333)
at
org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.doProduce(EatWhatYouKill.java:310)
at
org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.tryProduce(EatWhatYouKill.java:168)
at
org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.run(EatWhatYouKill.java:126)
at
org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:366)
at
org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:765)
at
org.eclipse.jetty.util.thread.QueuedThreadPool$2.run(QueuedThreadPool.java:683)
at java.lang.Thread.run(Thread.java:745)
[2018-11-29 16:03:01] Fuseki INFO [6259] 500 Read-only block
manager (5 ms)
If I try to delete the dataset by using the "remove" button on web
interface I get:
Sorry, removing dataset /pluto did not work, because: 'There are 6262
configuration files, not one. Delete not performed; clearup of the
filesystem needed.'
Anyway, I'd like to have "CLEAR ALL" command working: any idea?
Thanks
