Hi Marmotta Users,
Short of dumping the database I’m not able to delete data from the graph.
Security.Configured = false, Security.Enabled = false, the persistence is
handled by mySQL, I have the data I wish to delete in a separate context and
yet still no way to remove.
- Choosing ‘delete’ in the context manager does prompt for confirmation but
after nothing appears to happen.
- $ curl -X DELETE -D -v
"http://127.0.0.1:8080/marmotta/context?graph=http://server.com:8080/marmotta/context/people”
where server.com is the real name of the system as shown in the context
manager.
- Using squebi 'DROP GRAPH
<http://lims.vrtx.com:8080/marmotta/context/people>’ doesn’t return an error or
any indication it’s working.
The marmotta-main.log reports,
14:39:42.445 ERROR o.a.m.k.persistence.KiWiConnection - COMMIT: temporary
conflict could not be solved! (error: No operations allowed after connection
closed.)
14:39:42.452 ERROR o.a.m.p.c.s.t.ContextServiceImpl - error accessing RDF
repository
org.openrdf.repository.RepositoryException: org.openrdf.sail.SailException:
database error while committing transaction
at
org.openrdf.repository.sail.SailRepositoryConnection.commit(SailRepositoryConnection.java:109)
~[SailRepositoryConnection.class:na]
at
org.openrdf.repository.base.RepositoryConnectionWrapper.commit(RepositoryConnectionWrapper.java:282)
~[RepositoryConnectionWrapper.class:na]
at
org.apache.marmotta.platform.core.services.triplestore.ContextServiceImpl.removeContext(ContextServiceImpl.java:387)
~[ContextServiceImpl.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.services.triplestore.ContextServiceImpl$Proxy$_$$_WeldClientProxy.removeContext(Unknown
Source) [ContextServiceImpl.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.webservices.triplestore.ContextWebService.delete(ContextWebService.java:156)
[ContextWebService.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.webservices.triplestore.ContextWebService.deleteContext(ContextWebService.java:173)
[ContextWebService.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.webservices.triplestore.ContextWebService$Proxy$_$$_WeldClientProxy.deleteContext(Unknown
Source) [ContextWebService.class:3.3.0-SNAPSHOT]
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
~[na:1.8.0_11]
at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
~[na:1.8.0_11]
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
~[na:1.8.0_11]
at java.lang.reflect.Method.invoke(Method.java:483) ~[na:1.8.0_11]
at
org.jboss.resteasy.core.MethodInjectorImpl.invoke(MethodInjectorImpl.java:137)
[MethodInjectorImpl.class:na]
at
org.jboss.resteasy.core.ResourceMethodInvoker.invokeOnTarget(ResourceMethodInvoker.java:296)
[ResourceMethodInvoker.class:na]
at
org.jboss.resteasy.core.ResourceMethodInvoker.invoke(ResourceMethodInvoker.java:250)
[ResourceMethodInvoker.class:na]
at
org.jboss.resteasy.core.ResourceMethodInvoker.invoke(ResourceMethodInvoker.java:237)
[ResourceMethodInvoker.class:na]
at
org.jboss.resteasy.core.SynchronousDispatcher.invoke(SynchronousDispatcher.java:356)
[SynchronousDispatcher.class:na]
at
org.jboss.resteasy.core.SynchronousDispatcher.invokePropagateNotFound(SynchronousDispatcher.java:217)
[SynchronousDispatcher.class:na]
at
org.jboss.resteasy.plugins.server.servlet.ServletContainerDispatcher.service(ServletContainerDispatcher.java:224)
[ServletContainerDispatcher.class:na]
at
org.jboss.resteasy.plugins.server.servlet.FilterDispatcher.doFilter(FilterDispatcher.java:62)
[FilterDispatcher.class:na]
at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:239)
[catalina.jar:8.0.9]
at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
[catalina.jar:8.0.9]
at
org.apache.marmotta.platform.core.servlet.MarmottaResourceFilter$LMFFilterChain.doFilter(MarmottaResourceFilter.java:186)
[MarmottaResourceFilter$LMFFilterChain.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.filters.ModuleResourceFilter.doFilter(ModuleResourceFilter.java:163)
[ModuleResourceFilter.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.filters.ModuleResourceFilter$Proxy$_$$_WeldClientProxy.doFilter(Unknown
Source) [ModuleResourceFilter.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.servlet.MarmottaResourceFilter$LMFFilterChain.doFilter(MarmottaResourceFilter.java:181)
[MarmottaResourceFilter$LMFFilterChain.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.filters.MarmottaServerNameFilter.doFilter(MarmottaServerNameFilter.java:104)
[MarmottaServerNameFilter.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.servlet.MarmottaResourceFilter$LMFFilterChain.doFilter(MarmottaResourceFilter.java:181)
[MarmottaResourceFilter$LMFFilterChain.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.filters.TemplatingFilter.doFilter(TemplatingFilter.java:176)
[TemplatingFilter.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.filters.TemplatingFilter$Proxy$_$$_WeldClientProxy.doFilter(Unknown
Source) [TemplatingFilter.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.servlet.MarmottaResourceFilter$LMFFilterChain.doFilter(MarmottaResourceFilter.java:181)
[MarmottaResourceFilter$LMFFilterChain.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.servlet.MarmottaResourceFilter$LMFFilterChain.doFilter(MarmottaResourceFilter.java:183)
[MarmottaResourceFilter$LMFFilterChain.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.security.filters.MarmottaAccessControlFilter.doFilter(MarmottaAccessControlFilter.java:148)
[MarmottaAccessControlFilter.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.security.filters.MarmottaAccessControlFilter$Proxy$_$$_WeldClientProxy.doFilter(Unknown
Source) [MarmottaAccessControlFilter.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.servlet.MarmottaResourceFilter$LMFFilterChain.doFilter(MarmottaResourceFilter.java:181)
[MarmottaResourceFilter$LMFFilterChain.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.user.filters.MarmottaAuthenticationFilter.doFilter(MarmottaAuthenticationFilter.java:176)
[MarmottaAuthenticationFilter.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.user.filters.MarmottaAuthenticationFilter$Proxy$_$$_WeldClientProxy.doFilter(Unknown
Source) [MarmottaAuthenticationFilter.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.servlet.MarmottaResourceFilter$LMFFilterChain.doFilter(MarmottaResourceFilter.java:181)
[MarmottaResourceFilter$LMFFilterChain.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.platform.core.servlet.MarmottaResourceFilter.doFilter(MarmottaResourceFilter.java:132)
[MarmottaResourceFilter.class:3.3.0-SNAPSHOT]
at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:239)
[catalina.jar:8.0.9]
at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
[catalina.jar:8.0.9]
at
org.apache.marmotta.platform.core.servlet.MarmottaPreStartupFilter.doFilter(MarmottaPreStartupFilter.java:106)
[MarmottaPreStartupFilter.class:3.3.0-SNAPSHOT]
at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:239)
[catalina.jar:8.0.9]
at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
[catalina.jar:8.0.9]
at
com.thetransactioncompany.cors.CORSFilter.doFilter(CORSFilter.java:169)
[CORSFilter.class:1.9]
at
com.thetransactioncompany.cors.CORSFilter.doFilter(CORSFilter.java:232)
[CORSFilter.class:1.9]
at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:239)
[catalina.jar:8.0.9]
at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
[catalina.jar:8.0.9]
at
org.apache.marmotta.platform.core.servlet.MarmottaOptionsFilter.doFilter(MarmottaOptionsFilter.java:83)
[MarmottaOptionsFilter.class:3.3.0-SNAPSHOT]
at
org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:239)
[catalina.jar:8.0.9]
at
org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:206)
[catalina.jar:8.0.9]
at
org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:219)
[catalina.jar:8.0.9]
at
org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:106)
[catalina.jar:8.0.9]
at
org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:503)
[catalina.jar:8.0.9]
at
org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:136)
[catalina.jar:8.0.9]
at
org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:79)
[catalina.jar:8.0.9]
at
org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:610)
[catalina.jar:8.0.9]
at
org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:88)
[catalina.jar:8.0.9]
at
org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:526)
[catalina.jar:8.0.9]
at
org.apache.coyote.http11.AbstractHttp11Processor.process(AbstractHttp11Processor.java:1078)
[tomcat-coyote.jar:8.0.9]
at
org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:655)
[tomcat-coyote.jar:8.0.9]
at
org.apache.coyote.http11.Http11NioProtocol$Http11ConnectionHandler.process(Http11NioProtocol.java:222)
[tomcat-coyote.jar:8.0.9]
at
org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1566)
[tomcat-coyote.jar:8.0.9]
at
org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.run(NioEndpoint.java:1523)
[tomcat-coyote.jar:8.0.9]
at
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
[na:1.8.0_11]
at
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
[na:1.8.0_11]
at
org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61)
[tomcat-util.jar:8.0.9]
at java.lang.Thread.run(Thread.java:745) [na:1.8.0_11]
Caused by: org.openrdf.sail.SailException: database error while committing
transaction
at
org.apache.marmotta.kiwi.sail.KiWiSailConnection.commitInternal(KiWiSailConnection.java:355)
~[KiWiSailConnection.class:3.3.0-SNAPSHOT]
at
org.openrdf.sail.helpers.SailConnectionBase.commit(SailConnectionBase.java:424)
~[SailConnectionBase.class:na]
at
org.openrdf.sail.helpers.SailConnectionWrapper.commit(SailConnectionWrapper.java:126)
~[SailConnectionWrapper.class:na]
at
org.openrdf.sail.helpers.SailConnectionWrapper.commit(SailConnectionWrapper.java:126)
~[SailConnectionWrapper.class:na]
at
org.apache.marmotta.commons.sesame.transactions.sail.KiWiTransactionalConnection.commit(KiWiTransactionalConnection.java:135)
~[KiWiTransactionalConnection.class:3.3.0-SNAPSHOT]
at
org.openrdf.sail.helpers.SailConnectionWrapper.commit(SailConnectionWrapper.java:126)
~[SailConnectionWrapper.class:na]
at
org.openrdf.repository.sail.SailRepositoryConnection.commit(SailRepositoryConnection.java:106)
~[SailRepositoryConnection.class:na]
... 66 common frames omitted
Caused by:
com.mysql.jdbc.exceptions.jdbc4.MySQLNonTransientConnectionException: No
operations allowed after connection closed.
at sun.reflect.GeneratedConstructorAccessor59.newInstance(Unknown
Source) ~[na:na]
at
sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
~[na:1.8.0_11]
at java.lang.reflect.Constructor.newInstance(Constructor.java:408)
~[na:1.8.0_11]
at com.mysql.jdbc.Util.handleNewInstance(Util.java:408) ~[Util.class:na]
at com.mysql.jdbc.Util.getInstance(Util.java:383) ~[Util.class:na]
at com.mysql.jdbc.SQLError.createSQLException(SQLError.java:1023)
~[SQLError.class:na]
at com.mysql.jdbc.SQLError.createSQLException(SQLError.java:997)
~[SQLError.class:na]
at com.mysql.jdbc.SQLError.createSQLException(SQLError.java:983)
~[SQLError.class:na]
at com.mysql.jdbc.SQLError.createSQLException(SQLError.java:928)
~[SQLError.class:na]
at
com.mysql.jdbc.ConnectionImpl.throwConnectionClosedException(ConnectionImpl.java:1323)
~[ConnectionImpl.class:na]
at com.mysql.jdbc.ConnectionImpl.checkClosed(ConnectionImpl.java:1315)
~[ConnectionImpl.class:na]
at com.mysql.jdbc.ConnectionImpl.commit(ConnectionImpl.java:1721)
~[ConnectionImpl.class:na]
at sun.reflect.GeneratedMethodAccessor28.invoke(Unknown Source) ~[na:na]
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
~[na:1.8.0_11]
at java.lang.reflect.Method.invoke(Method.java:483) ~[na:1.8.0_11]
at
org.apache.tomcat.jdbc.pool.ProxyConnection.invoke(ProxyConnection.java:126)
~[ProxyConnection.class:na]
at
org.apache.tomcat.jdbc.pool.JdbcInterceptor.invoke(JdbcInterceptor.java:109)
~[JdbcInterceptor.class:na]
at
org.apache.tomcat.jdbc.pool.interceptor.AbstractCreateStatementInterceptor.invoke(AbstractCreateStatementInterceptor.java:71)
~[AbstractCreateStatementInterceptor.class:na]
at
org.apache.tomcat.jdbc.pool.JdbcInterceptor.invoke(JdbcInterceptor.java:109)
~[JdbcInterceptor.class:na]
at
org.apache.tomcat.jdbc.pool.interceptor.ConnectionState.invoke(ConnectionState.java:153)
~[ConnectionState.class:na]
at
org.apache.tomcat.jdbc.pool.JdbcInterceptor.invoke(JdbcInterceptor.java:109)
~[JdbcInterceptor.class:na]
at
org.apache.tomcat.jdbc.pool.TrapException.invoke(TrapException.java:41)
~[TrapException.class:na]
at
org.apache.tomcat.jdbc.pool.JdbcInterceptor.invoke(JdbcInterceptor.java:109)
~[JdbcInterceptor.class:na]
at
org.apache.tomcat.jdbc.pool.DisposableConnectionFacade.invoke(DisposableConnectionFacade.java:80)
~[DisposableConnectionFacade.class:na]
at com.sun.proxy.$Proxy81.commit(Unknown Source) ~[na:na]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$13.run(KiWiConnection.java:2261)
~[KiWiConnection$13.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$13.run(KiWiConnection.java:2250)
~[KiWiConnection$13.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$RetryExecution.execute(KiWiConnection.java:2502)
~[KiWiConnection$RetryExecution.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$RetryExecution.execute(KiWiConnection.java:2521)
~[KiWiConnection$RetryExecution.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$RetryExecution.execute(KiWiConnection.java:2521)
~[KiWiConnection$RetryExecution.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$RetryExecution.execute(KiWiConnection.java:2521)
~[KiWiConnection$RetryExecution.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$RetryExecution.execute(KiWiConnection.java:2521)
~[KiWiConnection$RetryExecution.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$RetryExecution.execute(KiWiConnection.java:2521)
~[KiWiConnection$RetryExecution.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$RetryExecution.execute(KiWiConnection.java:2521)
~[KiWiConnection$RetryExecution.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$RetryExecution.execute(KiWiConnection.java:2521)
~[KiWiConnection$RetryExecution.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$RetryExecution.execute(KiWiConnection.java:2521)
~[KiWiConnection$RetryExecution.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$RetryExecution.execute(KiWiConnection.java:2521)
~[KiWiConnection$RetryExecution.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$RetryExecution.execute(KiWiConnection.java:2521)
~[KiWiConnection$RetryExecution.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection.commit(KiWiConnection.java:2250)
~[KiWiConnection.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.sail.KiWiSailConnection.commitInternal(KiWiSailConnection.java:353)
~[KiWiSailConnection.class:3.3.0-SNAPSHOT]
... 72 common frames omitted
Caused by: com.mysql.jdbc.exceptions.jdbc4.CommunicationsException:
Communications link failure
The last packet successfully received from the server was 6,481,723
milliseconds ago. The last packet sent successfully to the server was 0
milliseconds ago.
at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native
Method) ~[na:1.8.0_11]
at
sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62)
~[na:1.8.0_11]
at
sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
~[na:1.8.0_11]
at java.lang.reflect.Constructor.newInstance(Constructor.java:408)
~[na:1.8.0_11]
at com.mysql.jdbc.Util.handleNewInstance(Util.java:408) ~[Util.class:na]
at
com.mysql.jdbc.SQLError.createCommunicationsException(SQLError.java:1137)
~[SQLError.class:na]
at com.mysql.jdbc.MysqlIO.reuseAndReadPacket(MysqlIO.java:3715)
~[MysqlIO.class:na]
at com.mysql.jdbc.MysqlIO.reuseAndReadPacket(MysqlIO.java:3604)
~[MysqlIO.class:na]
at com.mysql.jdbc.MysqlIO.checkErrorPacket(MysqlIO.java:4149)
~[MysqlIO.class:na]
at com.mysql.jdbc.MysqlIO.sendCommand(MysqlIO.java:2615)
~[MysqlIO.class:na]
at com.mysql.jdbc.MysqlIO.sqlQueryDirect(MysqlIO.java:2776)
~[MysqlIO.class:na]
at com.mysql.jdbc.ConnectionImpl.execSQL(ConnectionImpl.java:2840)
~[ConnectionImpl.class:na]
at
com.mysql.jdbc.PreparedStatement.executeInternal(PreparedStatement.java:2082)
~[PreparedStatement.class:na]
at
com.mysql.jdbc.PreparedStatement.executeUpdate(PreparedStatement.java:2334)
~[PreparedStatement.class:na]
at
com.mysql.jdbc.PreparedStatement.executeUpdate(PreparedStatement.java:2262)
~[PreparedStatement.class:na]
at
com.mysql.jdbc.PreparedStatement.executeUpdate(PreparedStatement.java:2246)
~[PreparedStatement.class:na]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$2.run(KiWiConnection.java:1255)
~[KiWiConnection$2.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$2.run(KiWiConnection.java:1233)
~[KiWiConnection$2.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection$RetryExecution.execute(KiWiConnection.java:2502)
~[KiWiConnection$RetryExecution.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.persistence.KiWiConnection.deleteTriple(KiWiConnection.java:1233)
~[KiWiConnection.class:3.3.0-SNAPSHOT]
at
org.apache.marmotta.kiwi.sail.KiWiSailConnection.removeStatementsInternal(KiWiSailConnection.java:395)
~[KiWiSailConnection.class:3.3.0-SNAPSHOT]
at
org.openrdf.sail.helpers.SailConnectionBase.removeStatements(SailConnectionBase.java:495)
~[SailConnectionBase.class:na]
at
org.openrdf.sail.helpers.SailConnectionWrapper.removeStatements(SailConnectionWrapper.java:144)
~[SailConnectionWrapper.class:na]
at
org.openrdf.sail.helpers.SailConnectionWrapper.removeStatements(SailConnectionWrapper.java:144)
~[SailConnectionWrapper.class:na]
at
org.openrdf.sail.helpers.SailConnectionWrapper.removeStatements(SailConnectionWrapper.java:144)
~[SailConnectionWrapper.class:na]
at
org.openrdf.repository.sail.SailRepositoryConnection.removeWithoutCommit(SailRepositoryConnection.java:296)
~[SailRepositoryConnection.class:na]
at
org.openrdf.repository.base.RepositoryConnectionBase.remove(RepositoryConnectionBase.java:543)
~[RepositoryConnectionBase.class:na]
at
org.openrdf.repository.base.RepositoryConnectionWrapper.remove(RepositoryConnectionWrapper.java:437)
~[RepositoryConnectionWrapper.class:na]
at
org.apache.marmotta.platform.core.services.triplestore.ContextServiceImpl.removeContext(ContextServiceImpl.java:384)
~[ContextServiceImpl.class:3.3.0-SNAPSHOT]
... 64 common frames omitted
Caused by: java.io.EOFException: Can not read response from server. Expected to
read 4 bytes, read 0 bytes before connection was unexpectedly lost.
at com.mysql.jdbc.MysqlIO.readFully(MysqlIO.java:3161)
~[MysqlIO.class:na]
at com.mysql.jdbc.MysqlIO.reuseAndReadPacket(MysqlIO.java:3615)
~[MysqlIO.class:na]
... 86 common frames omitted
15:40:02.522 WARN o.a.m.k.persistence.KiWiConnection - DELETE: temporary
conflict, retrying in 987 ms ... (thread=http-nio-8080-exec-9, retry=9)
16:05:51.288 WARN o.a.m.k.persistence.KiWiConnection - DELETE: temporary
conflict, retrying in 866 ms ... (thread=http-nio-8080-exec-2, retry=0)
All other functions seem to work OK including using squebi to show some data
right after trying to delete. Any suggestions? :|
-J
Joshua Dunham
Scientific Computing | Vertex
E: joshua_dun...@vrtx.com
P: 617-229-5157
W: http://www.vrtx.com
L: http://linkedin.com/in/joshuadunham
S: joshua.dunham
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