dpnevmatikos
commented
4 years ago Hi, Same issue here.
- Created the container with :
docker run -p 3030:3030 -e ADMIN_PASSWORD=pw123 stain/jena-fuseki - Uploaded a new dataset (ttl file)
- Stopped the container with:
docker stop <name> - Started the container with
docker start <name>
and the issue appeared:
[2020-04-03 09:27:09] Server ERROR Exception in initialization: caught: Process ID 7 can't open database at location /fuseki/databases/soda/ because it is already locked by the process with PID 8. TDB databases do not permit concurrent usage across JVMs so in order to prevent possible data corruption you cannot open this location from the JVM that does not own the lock for the dataset
[2020-04-03 09:27:09] WebAppContext WARN Failed startup of context o.e.j.w.WebAppContext@329a1f8d{Apache Jena Fuseki Server,/,file:///jena-fuseki/webapp/,UNAVAILABLE}
org.apache.jena.assembler.exceptions.AssemblerException: caught: Process ID 7 can't open database at location /fuseki/databases/soda/ because it is already locked by the process with PID 8. TDB databases do not permit concurrent usage across JVMs so in order to prevent possible data corruption you cannot open this location from the JVM that does not own the lock for the dataset
doing:
root: http://base/#tdb_dataset_readwrite with type: http://jena.hpl.hp.com/2008/tdb#DatasetTDB assembler class: class org.apache.jena.tdb.assembler.DatasetAssemblerTDB
at org.apache.jena.assembler.assemblers.AssemblerGroup$PlainAssemblerGroup.openBySpecificType(AssemblerGroup.java:165)
at org.apache.jena.assembler.assemblers.AssemblerGroup$PlainAssemblerGroup.open(AssemblerGroup.java:144)
at org.apache.jena.assembler.assemblers.AssemblerGroup$ExpandingAssemblerGroup.open(AssemblerGroup.java:93)
at org.apache.jena.assembler.assemblers.AssemblerBase.open(AssemblerBase.java:39)
at org.apache.jena.assembler.assemblers.AssemblerBase.open(AssemblerBase.java:35)
at org.apache.jena.fuseki.build.FusekiConfig.getDataset(FusekiConfig.java:638)
at org.apache.jena.fuseki.build.FusekiConfig.buildDataService(FusekiConfig.java:443)
at org.apache.jena.fuseki.build.FusekiConfig.buildDataAccessPoint(FusekiConfig.java:433)
at org.apache.jena.fuseki.build.FusekiConfig.readConfiguration(FusekiConfig.java:416)
at org.apache.jena.fuseki.build.FusekiConfig.readConfigurationDirectory(FusekiConfig.java:395)
at org.apache.jena.fuseki.webapp.FusekiWebapp.initializeDataAccessPoints(FusekiWebapp.java:216)
at org.apache.jena.fuseki.webapp.FusekiServerListener.serverInitialization(FusekiServerListener.java:93)
at org.apache.jena.fuseki.webapp.FusekiServerListener.contextInitialized(FusekiServerListener.java:53)
at org.eclipse.jetty.server.handler.ContextHandler.callContextInitialized(ContextHandler.java:952)
at org.eclipse.jetty.servlet.ServletContextHandler.callContextInitialized(ServletContextHandler.java:558)
at org.eclipse.jetty.server.handler.ContextHandler.startContext(ContextHandler.java:917)
at org.eclipse.jetty.servlet.ServletContextHandler.startContext(ServletContextHandler.java:370)
at org.eclipse.jetty.webapp.WebAppContext.startWebapp(WebAppContext.java:1497)
at org.eclipse.jetty.webapp.WebAppContext.startContext(WebAppContext.java:1459)
at org.eclipse.jetty.server.handler.ContextHandler.doStart(ContextHandler.java:847)
at org.eclipse.jetty.servlet.ServletContextHandler.doStart(ServletContextHandler.java:287)
at org.eclipse.jetty.webapp.WebAppContext.doStart(WebAppContext.java:545)
at org.eclipse.jetty.util.component.AbstractLifeCycle.start(AbstractLifeCycle.java:68)
at org.eclipse.jetty.util.component.ContainerLifeCycle.start(ContainerLifeCycle.java:138)
at org.eclipse.jetty.util.component.ContainerLifeCycle.doStart(ContainerLifeCycle.java:108)
at org.eclipse.jetty.server.handler.AbstractHandler.doStart(AbstractHandler.java:113)
at org.eclipse.jetty.server.handler.gzip.GzipHandler.doStart(GzipHandler.java:410)
at org.eclipse.jetty.util.component.AbstractLifeCycle.start(AbstractLifeCycle.java:68)
at org.eclipse.jetty.util.component.ContainerLifeCycle.start(ContainerLifeCycle.java:138)
at org.eclipse.jetty.server.Server.start(Server.java:416)
at org.eclipse.jetty.util.component.ContainerLifeCycle.doStart(ContainerLifeCycle.java:108)
at org.eclipse.jetty.server.handler.AbstractHandler.doStart(AbstractHandler.java:113)
at org.eclipse.jetty.server.Server.doStart(Server.java:383)
at org.eclipse.jetty.util.component.AbstractLifeCycle.start(AbstractLifeCycle.java:68)
at org.apache.jena.fuseki.cmd.JettyFusekiWebapp.start(JettyFusekiWebapp.java:138)
at org.apache.jena.fuseki.cmd.FusekiCmd.runFuseki(FusekiCmd.java:372)
at org.apache.jena.fuseki.cmd.FusekiCmd$FusekiCmdInner.exec(FusekiCmd.java:356)
at jena.cmd.CmdMain.mainMethod(CmdMain.java:93)
at jena.cmd.CmdMain.mainRun(CmdMain.java:58)
at jena.cmd.CmdMain.mainRun(CmdMain.java:45)
at org.apache.jena.fuseki.cmd.FusekiCmd$FusekiCmdInner.innerMain(FusekiCmd.java:104)
at org.apache.jena.fuseki.cmd.FusekiCmd.main(FusekiCmd.java:67)
Caused by: org.apache.jena.tdb.TDBException: Process ID 7 can't open database at location /fuseki/databases/soda/ because it is already locked by the process with PID 8. TDB databases do not permit concurrent usage across JVMs so in order to prevent possible data corruption you cannot open this location from the JVM that does not own the lock for the dataset
at org.apache.jena.tdb.StoreConnection._makeAndCache(StoreConnection.java:282)
at org.apache.jena.tdb.StoreConnection.make(StoreConnection.java:244)
at org.apache.jena.tdb.StoreConnection.make(StoreConnection.java:258)
at org.apache.jena.tdb.transaction.DatasetGraphTransaction.<init>(DatasetGraphTransaction.java:69)
at org.apache.jena.tdb.sys.TDBMaker.createDirect(TDBMaker.java:126)
at java.base/java.util.concurrent.ConcurrentHashMap.computeIfAbsent(Unknown Source)
at org.apache.jena.tdb.sys.TDBMaker._create(TDBMaker.java:112)
at org.apache.jena.tdb.sys.TDBMaker.createDatasetGraphTransaction(TDBMaker.java:43)
at org.apache.jena.tdb.TDBFactory._createDatasetGraph(TDBFactory.java:93)
at org.apache.jena.tdb.TDBFactory.createDatasetGraph(TDBFactory.java:71)
at org.apache.jena.tdb.assembler.DatasetAssemblerTDB.make(DatasetAssemblerTDB.java:57)
at org.apache.jena.tdb.assembler.DatasetAssemblerTDB.createDataset(DatasetAssemblerTDB.java:48)
at org.apache.jena.sparql.core.assembler.DatasetAssembler.open(DatasetAssembler.java:43)
at org.apache.jena.assembler.assemblers.AssemblerGroup$PlainAssemblerGroup.openBySpecificType(AssemblerGroup.java:157)
... 41 more
[2020-04-03 09:27:09] Server INFO Started 2020/04/03 09:27:09 UTC on port 3030It appears that Jena server is not shutting down gracefully. Am I doing something wrong?
Update: Just noticed this solution and it seems to work.
stain
inquota
namedgraph
thibaud-sanchez
sroze
Hi,
I have an issue with the jena-fuseki docker image.
I have the following configuration in my docker-compose file:
When I start this container for the first time, it works without any issues. When I stop the container and start it for a second time, I get the following errors in the log:
the problem seems to be the file /fuseki/system/tdb.lock. Whenever this file is present, the above error is triggered. When I remove the file, the container starts normally again.
it seems to me that on shutdown of the container, this file should be cleaned up. Is there any fix or workaround for this issue?