Andy -
I’m running Fuseki 1.0.1 with TDB:
# TDB
tdb:DatasetTDB rdfs:subClassOf ja:RDFDataset .
tdb:GraphTDB rdfs:subClassOf ja:Model .
## ---------------------------------------------------------------
## Service with only SPARQL query on an inference model.
## Inference model bbase data in TDB.
<#service1> rdf:type fuseki:Service ;
fuseki:name "km4sp" ; # http://host/inf
fuseki:serviceQuery "sparql" ; # SPARQL query service
fuseki:serviceConstruct "sparql" ; # SPARQL query service
fuseki:serviceUpdate "update" ;
fuseki:serviceUpload "upload" ;
fuseki:dataset <#dataset> ;
.
<#dataset> rdf:type ja:RDFDataset ;
ja:defaultGraph <#model_inf> ;
.
<#model_inf> a ja:InfModel ;
ja:baseModel <#tdbGraph> ;
ja:reasoner [
ja:reasonerURL <http://jena.hpl.hp.com/2003/RDFSExptRuleReasoner>
] .
<#tdbDataset> rdf:type tdb:DatasetTDB ;
tdb:location "/sp/km/demo/btn" ;
.
<#tdbGraph> rdf:type tdb:GraphTDB ;
tdb:dataset <#tdbDataset> .
Now, to a question (and a guilty admission of a dangerous practice):
Is there a recommended safe way to copy/move/replicate a store?
My best guess is that I copied the store to my SSD drive - possibly before
quitting Fuseki. (Yes, I know: Don’t Do That!) I assume that a snapshot of a
moving store is a big risk.
One thing that I did notice is that the size of the original store and the size
of the copy are significantly different - the copy is much larger. Is there
something I’m not understanding, wrt the store? I didn’t see any symbolic links
- are there hard links?
Thanks,
Mark
On Jun 27, 2014, at 4:31 AM, Andy Seaborne <[email protected]> wrote:
> Mark,
>
> What's the Fuseki configuration (and version, just to check)?
>
> It does look like an update problem but one that should not happen unless two
> things have update the DB simultaneously at some in the past. The queries
> just happen to detect the problem, which is probably permanent.
>
> Andy
>
>
> On 26/06/14 23:51, Mark Feblowitz wrote:
>> I saw something odd today (see trace below). I have a Fuseki/TDB
> server that receives some bursts of updates and queries.
>>
>> I know that this error appears to have failed during results
> iteration, but this is the first time we’ve seen this. One guess was an
> update locking problem. Does this make sense? Is there a better answer
> (that makes Fuseki look better? :)
>>
>> Among the things we changed before this are 1) moved the store to an
> SSD drive, and 2) I removed my 0.1 second delay between updates.
>>
>> The server did seem to recover from this, but I’m told it might have
> taken a while.
>>
>> Is this an ephemeral thing? Something I need to look into? An
>> internal
> thing?
>
>> Thanks,
>>
>> Mark
>>
>>
>> SELECT ?O ?ObsType ?Timestamp ?S ?E ?Payload
>> WHERE
>> { ?E <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> :E
>> { SELECT ?E ?O ?OType ?Timestamp
>> WHERE
>> { ?O :contextEntity ?E .
>> ?O :oType ?ObsType .
>> ?O :generatedAtTimeMilli ?Timestamp
>> }
>> ORDER BY DESC(?Timestamp)
>> LIMIT 1
>> }
>> { SELECT ?E ?S
>> WHERE
>> { ?SH :contextEntity ?E .
>> ?SH :generatedAtTimeMilli ?Timestamp .
>> ?SH :bestRank ?SHBestRank .
>> ?SH :s ?S
>> }
>> ORDER BY DESC(?Timestamp) ASC(?SHBestRank)
>> LIMIT 1
>> }
>> OPTIONAL
>> { ?O btn:payload ?Payload }
>> }
>>
>> 14:46:19 INFO [4918] exec/select
>> 14:46:20 WARN Open iterator: QueryIterSingleton/7998397
>> 14:46:20 WARN Open iterator: QueryIterBlockTriples/7998398
>> 14:46:20 WARN Open iterator: QueryIterTriplePattern/7998399
>> 14:46:20 WARN Open iterator: QueryIterTriplePattern/7998400
>> 14:46:20 WARN Open iterator: QueryIterTriplePattern/7998401
>> 14:46:20 WARN Open iterator: QueryIterTriplePattern/7998402
>> 14:46:20 WARN Open iterator: QueryIterTriplePattern$TripleMapper/7998405
>> 14:46:20 WARN Open iterator: QueryIterTriplePattern$TripleMapper/7998453
>> 14:46:20 WARN Open iterator: QueryIterTriplePattern$TripleMapper/7998454
>> 14:46:20 WARN Open iterator: QueryIterTriplePattern$TripleMapper/7998455
>> 14:46:20 WARN [4918] RC = 500 : RecordRangeIterator: records not strictly
>> increasing: 0000000005a1b314000000000000761b00000000000066f5 //
>> 000000000000004b00000000000000bd0000000003835bbe
>> com.hp.hpl.jena.tdb.base.StorageException: RecordRangeIterator: records not
>> strictly increasing: 0000000005a1b314000000000000761b00000000000066f5 //
>> 000000000000004b00000000000000bd0000000003835bbe
>> at
>> com.hp.hpl.jena.tdb.base.recordbuffer.RecordRangeIterator.hasNext(RecordRangeIterator.java:124)
>> at org.apache.jena.atlas.iterator.Iter$4.hasNext(Iter.java:317)
>> at
>> com.hp.hpl.jena.tdb.sys.DatasetControlMRSW$IteratorCheckNotConcurrent.hasNext(DatasetControlMRSW.java:119)
>> at org.apache.jena.atlas.iterator.Iter$4.hasNext(Iter.java:317)
>> at org.apache.jena.atlas.iterator.Iter$4.hasNext(Iter.java:317)
>> at org.apache.jena.atlas.iterator.Iter$4.hasNext(Iter.java:317)
>> at org.apache.jena.atlas.iterator.Iter.hasNext(Iter.java:915)
>> at
>> com.hp.hpl.jena.util.iterator.WrappedIterator.hasNext(WrappedIterator.java:90)
>> at
>> com.hp.hpl.jena.util.iterator.NiceIterator$1.hasNext(NiceIterator.java:103)
>> at
>> com.hp.hpl.jena.util.iterator.NiceIterator$1.hasNext(NiceIterator.java:103)
>> at
>> com.hp.hpl.jena.reasoner.rulesys.impl.TopLevelTripleMatchFrame.nextMatch(TopLevelTripleMatchFrame.java:55)
>> at
>> com.hp.hpl.jena.reasoner.rulesys.impl.LPInterpreter.run(LPInterpreter.java:330)
>> at
>> com.hp.hpl.jena.reasoner.rulesys.impl.LPInterpreter.next(LPInterpreter.java:192)
>> at
>> com.hp.hpl.jena.reasoner.rulesys.impl.LPTopGoalIterator.moveForward(LPTopGoalIterator.java:100)
>> at
>> com.hp.hpl.jena.reasoner.rulesys.impl.LPTopGoalIterator.hasNext(LPTopGoalIterator.java:222)
>> at
>> com.hp.hpl.jena.util.iterator.WrappedIterator.hasNext(WrappedIterator.java:90)
>> at
>> com.hp.hpl.jena.util.iterator.WrappedIterator.hasNext(WrappedIterator.java:90)
>> at
>> com.hp.hpl.jena.util.iterator.FilterIterator.hasNext(FilterIterator.java:54)
>> at
>> com.hp.hpl.jena.util.iterator.WrappedIterator.hasNext(WrappedIterator.java:90)
>> at
>> com.hp.hpl.jena.util.iterator.FilterIterator.hasNext(FilterIterator.java:54)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterTriplePattern$TripleMapper.hasNextBinding(QueryIterTriplePattern.java:151)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterRepeatApply.hasNextBinding(QueryIterRepeatApply.java:76)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterBlockTriples.hasNextBinding(QueryIterBlockTriples.java:64)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterTopN$1.initializeIterator(QueryIterTopN.java:97)
>> at
>> org.apache.jena.atlas.iterator.IteratorDelayedInitialization.init(IteratorDelayedInitialization.java:40)
>> at
>> org.apache.jena.atlas.iterator.IteratorDelayedInitialization.hasNext(IteratorDelayedInitialization.java:50)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterPlainWrapper.hasNextBinding(QueryIterPlainWrapper.java:54)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterConvert.hasNextBinding(QueryIterConvert.java:59)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterRepeatApply.hasNextBinding(QueryIterRepeatApply.java:76)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterRepeatApply.makeNextStage(QueryIterRepeatApply.java:103)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterRepeatApply.hasNextBinding(QueryIterRepeatApply.java:67)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIterConvert.hasNextBinding(QueryIterConvert.java:59)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:40)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorWrapper.hasNextBinding(QueryIteratorWrapper.java:40)
>> at
>> com.hp.hpl.jena.sparql.engine.iterator.QueryIteratorBase.hasNext(QueryIteratorBase.java:112)
>> at
>> com.hp.hpl.jena.sparql.engine.ResultSetStream.hasNext(ResultSetStream.java:75)
>> at
>> com.hp.hpl.jena.sparql.resultset.ResultSetApply.apply(ResultSetApply.java:41)
>> at com.hp.hpl.jena.sparql.resultset.XMLOutput.format(XMLOutput.java:52)
>> at
>> com.hp.hpl.jena.query.ResultSetFormatter.outputAsXML(ResultSetFormatter.java:482)
>> at
>> org.apache.jena.fuseki.servlets.ResponseResultSet$1.output(ResponseResultSet.java:191)
>> at
>> org.apache.jena.fuseki.servlets.ResponseResultSet.output(ResponseResultSet.java:283)
>> at
>> org.apache.jena.fuseki.servlets.ResponseResultSet.sparqlXMLOutput(ResponseResultSet.java:195)
>> at
>> org.apache.jena.fuseki.servlets.ResponseResultSet.doResponseResultSet$(ResponseResultSet.java:141)
>> at
>> org.apache.jena.fuseki.servlets.ResponseResultSet.doResponseResultSet(ResponseResultSet.java:88)
>> at
>> org.apache.jena.fuseki.servlets.SPARQL_Query.sendResults(SPARQL_Query.java:348)
>> at
>> org.apache.jena.fuseki.servlets.SPARQL_Query.execute(SPARQL_Query.java:244)
>> at
>> org.apache.jena.fuseki.servlets.SPARQL_Query.executeWithParameter(SPARQL_Query.java:195)
>> at org.apache.jena.fuseki.servlets.SPARQL_Query.perform(SPARQL_Query.java:80)
>> at
>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.executeLifecycle(SPARQL_ServletBase.java:171)
>> at
>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.executeAction(SPARQL_ServletBase.java:152)
>> at
>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.execCommonWorker(SPARQL_ServletBase.java:140)
>> at
>> org.apache.jena.fuseki.servlets.SPARQL_ServletBase.doCommon(SPARQL_ServletBase.java:69)
>> at org.apache.jena.fuseki.servlets.SPARQL_Query.doGet(SPARQL_Query.java:61)
>> at javax.servlet.http.HttpServlet.service(HttpServlet.java:735)
>> at javax.servlet.http.HttpServlet.service(HttpServlet.java:848)
>> at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:684)
>> at
>> org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1448)
>> at
>> org.eclipse.jetty.servlets.UserAgentFilter.doFilter(UserAgentFilter.java:82)
>> at org.eclipse.jetty.servlets.GzipFilter.doFilter(GzipFilter.java:294)
>> at
>> org.eclipse.jetty.servlet.ServletHandler$CachedChain.doFilter(ServletHandler.java:1419)
>> at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:455)
>> at
>> org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:229)
>> at
>> org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1075)
>> at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:384)
>> at
>> org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:193)
>> at
>> org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1009)
>> at
>> org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:135)
>> at
>> org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:116)
>> at org.eclipse.jetty.server.Server.handle(Server.java:370)
>> at
>> org.eclipse.jetty.server.AbstractHttpConnection.handleRequest(AbstractHttpConnection.java:489)
>> at
>> org.eclipse.jetty.server.BlockingHttpConnection.handleRequest(BlockingHttpConnection.java:53)
>> at
>> org.eclipse.jetty.server.AbstractHttpConnection.headerComplete(AbstractHttpConnection.java:949)
>> at
>> org.eclipse.jetty.server.AbstractHttpConnection$RequestHandler.headerComplete(AbstractHttpConnection.java:1011)
>> at org.eclipse.jetty.http.HttpParser.parseNext(HttpParser.java:644)
>> at org.eclipse.jetty.http.HttpParser.parseAvailable(HttpParser.java:235)
>> at
>> org.eclipse.jetty.server.BlockingHttpConnection.handle(BlockingHttpConnection.java:72)
>> at
>> org.eclipse.jetty.server.nio.BlockingChannelConnector$BlockingChannelEndPoint.run(BlockingChannelConnector.java:298)
>> at
>> org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:608)
>> at
>> org.eclipse.jetty.util.thread.QueuedThreadPool$3.run(QueuedThreadPool.java:543)
>> at java.lang.Thread.run(Thread.java:745)
>> 14:46:20 INFO [4918] Content-Type application/sparql-r?O?O
>>
>
