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From "Bala Krishna (JIRA)" <j...@apache.org>
Subject [jira] [Created] (HIVE-7290) BoneCP Connection Pooling throwing JDODataStoreException with Hive 0.13.1
Date Wed, 25 Jun 2014 18:32:25 GMT
Bala Krishna created HIVE-7290:
----------------------------------

             Summary: BoneCP Connection Pooling throwing JDODataStoreException with Hive 0.13.1

                 Key: HIVE-7290
                 URL: https://issues.apache.org/jira/browse/HIVE-7290
             Project: Hive
          Issue Type: Bug
          Components: Database/Schema, Metastore
    Affects Versions: 0.13.1
         Environment: Hadoop 2.2.0
Hive 0.13.1
BoneCP 0.8.0.RELEASE
            Reporter: Bala Krishna


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.

=================

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



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