Soam, What version of BoneCP are you using?
Thanks, --Vaibhav On Tue, Jun 10, 2014 at 12:41 PM, Soam Acharya <s...@altiscale.com> wrote: > Hi folks, > > we're seeing an intermittent issue between our Hive 0.13 metastore and > mysql instance. After being idle for about 5 minutes or so, any > transactions involving the metastore and mysql causes the following error > to appear in the metastore log: > > 2014-06-09 05:13:52,066 ERROR bonecp.ConnectionHandle > (ConnectionHandle.java:markPossiblyBroken(388)) - Database access problem. > Killing off this connection and all remaining connectio > ns in the connection pool. SQL State = 08S01 > 2014-06-09 05:13:52,068 ERROR metastore.RetryingHMSHandler > (RetryingHMSHandler.java:invoke(157)) - Retrying HMSHandler after 1000 ms > (attempt 1 of 1) with error: javax.jdo.JDODataStore > Exception: Communications link failure > > The last packet successfully received from the server was 502,751 > milliseconds ago. The last packet sent successfully to the server was 1 > milliseconds ago. > at > org.datanucleus.api.jdo.NucleusJDOHelper.getJDOExceptionForNucleusException(NucleusJDOHelper.java:451) > at org.datanucleus.api.jdo.JDOQuery.execute(JDOQuery.java:275) > at > org.apache.hadoop.hive.metastore.ObjectStore.getMTable(ObjectStore.java:900) > at > org.apache.hadoop.hive.metastore.ObjectStore.getTable(ObjectStore.java:832) > at sun.reflect.GeneratedMethodAccessor9.invoke(Unknown Source) > > [full stack trace is below] > > Subsequent transactions go through fine, however. This only occurs if the > metastore has has been idle for a while. > > We've been looking at the code and the problem seems to lie in the channel > between the driver and metastore connection pool. We looked at the wait > time configuration settings both mysql and BoneCP. Both of them are set for > max value. > > Our hive 0.12 install uses DBCP for datanucleus.connectionPoolingType, not > BoneCP and we don't see these issues there. We are not running Tez. > > This seems like such a basic issue that we'd thought to check and see if > anyone else has encountered it. Any insights would be greatly appreciated. > > Thanks! > > Soam > > ================= > > Full stack trace: > > 2014-06-09 05:13:52,066 ERROR bonecp.ConnectionHandle > (ConnectionHandle.java:markPossiblyBroken(388)) - Database access problem. > Killing off this connection and all remaining connectio > ns in the connection pool. SQL State = 08S01 > 2014-06-09 05:13:52,068 ERROR metastore.RetryingHMSHandler > (RetryingHMSHandler.java:invoke(157)) - Retrying HMSHandler after 1000 ms > (attempt 1 of 1) with error: javax.jdo.JDODataStore > Exception: Communications link failure > > The last packet successfully received from the server was 502,751 > milliseconds ago. The last packet sent successfully to the server was 1 > milliseconds ago. > at > org.datanucleus.api.jdo.NucleusJDOHelper.getJDOExceptionForNucleusException(NucleusJDOHelper.java:451) > at org.datanucleus.api.jdo.JDOQuery.execute(JDOQuery.java:275) > at > org.apache.hadoop.hive.metastore.ObjectStore.getMTable(ObjectStore.java:900) > at > org.apache.hadoop.hive.metastore.ObjectStore.getTable(ObjectStore.java:832) > at sun.reflect.GeneratedMethodAccessor9.invoke(Unknown Source) > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) > at java.lang.reflect.Method.invoke(Method.java:606) > at > org.apache.hadoop.hive.metastore.RawStoreProxy.invoke(RawStoreProxy.java:108) > at com.sun.proxy.$Proxy0.getTable(Unknown Source) > at > org.apache.hadoop.hive.metastore.HiveMetaStore$HMSHandler.get_table(HiveMetaStore.java:1559) > at sun.reflect.GeneratedMethodAccessor15.invoke(Unknown Source) > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) > at java.lang.reflect.Method.invoke(Method.java:606) > at > org.apache.hadoop.hive.metastore.RetryingHMSHandler.invoke(RetryingHMSHandler.java:105) > at com.sun.proxy.$Proxy11.get_table(Unknown Source) > at > org.apache.hadoop.hive.metastore.api.ThriftHiveMetastore$Processor$get_table.getResult(ThriftHiveMetastore.java:8146) > at > org.apache.hadoop.hive.metastore.api.ThriftHiveMetastore$Processor$get_table.getResult(ThriftHiveMetastore.java:8130) > at > org.apache.thrift.ProcessFunction.process(ProcessFunction.java:39) > at > org.apache.hadoop.hive.metastore.TUGIBasedProcessor$1.run(TUGIBasedProcessor.java:110) > at > org.apache.hadoop.hive.metastore.TUGIBasedProcessor$1.run(TUGIBasedProcessor.java:107) > at java.security.AccessController.doPrivileged(Native Method) > at javax.security.auth.Subject.doAs(Subject.java:415) > at > org.apache.hadoop.security.UserGroupInformation.doAs(UserGroupInformation.java:1491) > at > org.apache.hadoop.hive.shims.HadoopShimsSecure.doAs(HadoopShimsSecure.java:500) > at > org.apache.hadoop.hive.metastore.TUGIBasedProcessor.process(TUGIBasedProcessor.java:118) > at > org.apache.thrift.server.TThreadPoolServer$WorkerProcess.run(TThreadPoolServer.java:206) > at > java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145) > at > java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615) > at java.lang.Thread.run(Thread.java:744) > NestedThrowablesStackTrace: > com.mysql.jdbc.exceptions.jdbc4.CommunicationsException: Communications > link failure > > The last packet successfully received from the server was 502,751 > milliseconds ago. The last packet sent successfully to the server was 1 > milliseconds ago. > at sun.reflect.GeneratedConstructorAccessor41.newInstance(Unknown > Source) > at > sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) > at java.lang.reflect.Constructor.newInstance(Constructor.java:526) > at com.mysql.jdbc.Util.handleNewInstance(Util.java:411) > at > com.mysql.jdbc.SQLError.createCommunicationsException(SQLError.java:1117) > at com.mysql.jdbc.MysqlIO.reuseAndReadPacket(MysqlIO.java:3603) > at com.mysql.jdbc.MysqlIO.reuseAndReadPacket(MysqlIO.java:3492) > at com.mysql.jdbc.MysqlIO.checkErrorPacket(MysqlIO.java:4043) > at com.mysql.jdbc.MysqlIO.sendCommand(MysqlIO.java:2503) > at com.mysql.jdbc.MysqlIO.sqlQueryDirect(MysqlIO.java:2664) > at com.mysql.jdbc.ConnectionImpl.execSQL(ConnectionImpl.java:2788) > at > com.mysql.jdbc.ConnectionImpl.setAutoCommit(ConnectionImpl.java:5282) > at > com.jolbox.bonecp.ConnectionHandle.setAutoCommit(ConnectionHandle.java:1292) > at > org.datanucleus.store.rdbms.ConnectionFactoryImpl$ManagedConnectionImpl.getConnection(ConnectionFactoryImpl.java:440) > at > org.datanucleus.store.rdbms.ConnectionFactoryImpl$ManagedConnectionImpl.getXAResource(ConnectionFactoryImpl.java:378) > at > org.datanucleus.store.connection.ConnectionManagerImpl.allocateConnection(ConnectionManagerImpl.java:328) > at > org.datanucleus.store.connection.AbstractConnectionFactory.getConnection(AbstractConnectionFactory.java:94) > at > org.datanucleus.store.AbstractStoreManager.getConnection(AbstractStoreManager.java:430) > at > org.datanucleus.store.AbstractStoreManager.getConnection(AbstractStoreManager.java:396) > at > org.datanucleus.store.rdbms.query.JDOQLQuery.performExecute(JDOQLQuery.java:621) > at org.datanucleus.store.query.Query.executeQuery(Query.java:1786) > at > org.datanucleus.store.query.Query.executeWithArray(Query.java:1672) > at org.datanucleus.api.jdo.JDOQuery.execute(JDOQuery.java:266) > at > org.apache.hadoop.hive.metastore.ObjectStore.getMTable(ObjectStore.java:900) > at > org.apache.hadoop.hive.metastore.ObjectStore.getTable(ObjectStore.java:832) > at sun.reflect.GeneratedMethodAccessor9.invoke(Unknown Source) > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) > at java.lang.reflect.Method.invoke(Method.java:606) > at > org.apache.hadoop.hive.metastore.RawStoreProxy.invoke(RawStoreProxy.java:108) > at com.sun.proxy.$Proxy0.getTable(Unknown Source) > at > org.apache.hadoop.hive.metastore.HiveMetaStore$HMSHandler.get_table(HiveMetaStore.java:1559) > at sun.reflect.GeneratedMethodAccessor15.invoke(Unknown Source) > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) > at java.lang.reflect.Method.invoke(Method.java:606) > at > org.apache.hadoop.hive.metastore.RetryingHMSHandler.invoke(RetryingHMSHandler.java:105) > at com.sun.proxy.$Proxy11.get_table(Unknown Source) > at > org.apache.hadoop.hive.metastore.api.ThriftHiveMetastore$Processor$get_table.getResult(ThriftHiveMetastore.java:8146) > at > org.apache.hadoop.hive.metastore.api.ThriftHiveMetastore$Processor$get_table.getResult(ThriftHiveMetastore.java:8130) > at > org.apache.thrift.ProcessFunction.process(ProcessFunction.java:39) > at > org.apache.hadoop.hive.metastore.TUGIBasedProcessor$1.run(TUGIBasedProcessor.java:110) > at > org.apache.hadoop.hive.metastore.TUGIBasedProcessor$1.run(TUGIBasedProcessor.java:107) > at java.security.AccessController.doPrivileged(Native Method) > at javax.security.auth.Subject.doAs(Subject.java:415) > at > org.apache.hadoop.security.UserGroupInformation.doAs(UserGroupInformation.java:1491) > at > org.apache.hadoop.hive.shims.HadoopShimsSecure.doAs(HadoopShimsSecure.java:500) > at > org.apache.hadoop.hive.metastore.TUGIBasedProcessor.process(TUGIBasedProcessor.java:118) > at > org.apache.thrift.server.TThreadPoolServer$WorkerProcess.run(TThreadPoolServer.java:206) > at > java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145) > at > java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615) > at java.lang.Thread.run(Thread.java:744) > 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:3052) > at com.mysql.jdbc.MysqlIO.reuseAndReadPacket(MysqlIO.java:3503) > ... 44 more > > > -- CONFIDENTIALITY NOTICE NOTICE: This message is intended for the use of the individual or entity to which it is addressed and may contain information that is confidential, privileged and exempt from disclosure under applicable law. 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