Jack Hu created SPARK-21480:
-------------------------------
Summary: Memory leak in
org.apache.hadoop.hive.metastore.MetaStoreDirectSql.executeNoResult
Key: SPARK-21480
URL: https://issues.apache.org/jira/browse/SPARK-21480
Project: Spark
Issue Type: Bug
Components: SQL
Affects Versions: 2.1.1
Reporter: Jack Hu
There is memory leak in hive with mysql in
{{org.apache.hadoop.hive.metastore.MetaStoreDirectSql.executeNoResult}}, which
create sql statements, but not close it.
Here is the simple one to recreate it:
{code:java}
val port = 19999
val stream = ssc.socketTextStream("host", port).map(x =>
(x,x)).updateStateByKey(
(inputs : Seq[String], s : Option[String]) => inputs.lastOption.orElse(s)
)
stream.foreachRDD((rdd, t) => {
hiveContext.sparkSession.createDataFrame(rdd).write.mode("overwrite").saveAsTable("t")
}
{code}
Here is the hive settings
{code}
hive.metastore.warehouse.dir=file:///user/hive/warehouse
javax.jdo.option.ConnectionURL=jdbc:mysql://ip:3306/hive
spark.sql.warehouse.dir=file:///user/hive/warehouse
javax.jdo.option.ConnectionDriveName=com.mysql.jdbc.Driver
javax.jdo.option.ConnectionUserName=hive
javax.jdo.option.ConnectionPassword=hive
hive.exec.dynamic.partition.mode=nonstrict
{code}
After execute a while, there are many instances of
{{com.mysql.jdbc.JDBC42ResultSet}} and {{com.mysql.jdbc.StatementImpl}} and
keep increasing.
After attache a debugger, we found the statements create in
{{org.apache.hadoop.hive.metastore.MetaStoreDirectSql.executeNoResult}} but not
closed
{code:java}
private void executeNoResult(final String queryText) throws SQLException {
JDOConnection jdoConn = pm.getDataStoreConnection();
boolean doTrace = LOG.isDebugEnabled();
try {
long start = doTrace ? System.nanoTime() : 0;
((Connection)jdoConn.getNativeConnection()).createStatement().execute(queryText);
timingTrace(doTrace, queryText, start, doTrace ? System.nanoTime() : 0);
} finally {
jdoConn.close(); // We must release the connection before we call other
pm methods.
}
}
{code}
The reference call stack is
{code:java}
at com.mysql.jdbc.JDBC42ResultSet.<init>(JDBC42ResultSet.java:44)
at sun.reflect.GeneratedConstructorAccessor14.newInstance(Unknown
Source)
at
sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
at java.lang.reflect.Constructor.newInstance(Constructor.java:422)
at com.mysql.jdbc.Util.handleNewInstance(Util.java:404)
at com.mysql.jdbc.ResultSetImpl.getInstance(ResultSetImpl.java:319)
at com.mysql.jdbc.MysqlIO.buildResultSetWithUpdates(MysqlIO.java:3114)
at com.mysql.jdbc.MysqlIO.readResultsForQueryOrUpdate(MysqlIO.java:3014)
at com.mysql.jdbc.MysqlIO.readAllResults(MysqlIO.java:2280)
at com.mysql.jdbc.MysqlIO.sqlQueryDirect(MysqlIO.java:2673)
at com.mysql.jdbc.ConnectionImpl.execSQL(ConnectionImpl.java:2546)
at com.mysql.jdbc.ConnectionImpl.execSQL(ConnectionImpl.java:2504)
at com.mysql.jdbc.StatementImpl.executeInternal(StatementImpl.java:840)
at com.mysql.jdbc.StatementImpl.execute(StatementImpl.java:740)
at com.jolbox.bonecp.StatementHandle.execute(StatementHandle.java:254)
at
org.apache.hadoop.hive.metastore.MetaStoreDirectSql.executeNoResult(MetaStoreDirectSql.java:233)
at
org.apache.hadoop.hive.metastore.MetaStoreDirectSql.doDbSpecificInitializationsBeforeQuery(MetaStoreDirectSql.java:222)
at
org.apache.hadoop.hive.metastore.MetaStoreDirectSql.getDatabase(MetaStoreDirectSql.java:263)
at
org.apache.hadoop.hive.metastore.ObjectStore$1.getSqlResult(ObjectStore.java:578)
at
org.apache.hadoop.hive.metastore.ObjectStore$1.getSqlResult(ObjectStore.java:575)
at
org.apache.hadoop.hive.metastore.ObjectStore$GetHelper.run(ObjectStore.java:2385)
at
org.apache.hadoop.hive.metastore.ObjectStore.getDatabaseInternal(ObjectStore.java:575)
at
org.apache.hadoop.hive.metastore.ObjectStore.getDatabase(ObjectStore.java:559)
at sun.reflect.GeneratedMethodAccessor60.invoke(Unknown Source)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:497)
at
org.apache.hadoop.hive.metastore.RawStoreProxy.invoke(RawStoreProxy.java:114)
at com.sun.proxy.$Proxy9.getDatabase(Unknown Source)
at
org.apache.hadoop.hive.metastore.HiveMetaStore$HMSHandler.get_database_core(HiveMetaStore.java:956)
at
org.apache.hadoop.hive.metastore.HiveMetaStore$HMSHandler.get_database(HiveMetaStore.java:930)
at sun.reflect.GeneratedMethodAccessor62.invoke(Unknown Source)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:497)
at
org.apache.hadoop.hive.metastore.RetryingHMSHandler.invoke(RetryingHMSHandler.java:107)
at com.sun.proxy.$Proxy11.get_database(Unknown Source)
at
org.apache.hadoop.hive.metastore.HiveMetaStoreClient.getDatabase(HiveMetaStoreClient.java:1158)
at sun.reflect.GeneratedMethodAccessor61.invoke(Unknown Source)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:497)
at
org.apache.hadoop.hive.metastore.RetryingMetaStoreClient.invoke(RetryingMetaStoreClient.java:156)
at com.sun.proxy.$Proxy12.getDatabase(Unknown Source)
at org.apache.hadoop.hive.ql.metadata.Hive.getDatabase(Hive.java:1301)
at
org.apache.hadoop.hive.ql.metadata.Hive.databaseExists(Hive.java:1290)
at
org.apache.spark.sql.hive.client.HiveClientImpl$$anonfun$databaseExists$1.apply$mcZ$sp(HiveClientImpl.scala:346)
at
org.apache.spark.sql.hive.client.HiveClientImpl$$anonfun$databaseExists$1.apply(HiveClientImpl.scala:346)
at
org.apache.spark.sql.hive.client.HiveClientImpl$$anonfun$databaseExists$1.apply(HiveClientImpl.scala:346)
at
org.apache.spark.sql.hive.client.HiveClientImpl$$anonfun$withHiveState$1.apply(HiveClientImpl.scala:279)
at
org.apache.spark.sql.hive.client.HiveClientImpl.liftedTree1$1(HiveClientImpl.scala:226)
at
org.apache.spark.sql.hive.client.HiveClientImpl.retryLocked(HiveClientImpl.scala:225)
at
org.apache.spark.sql.hive.client.HiveClientImpl.withHiveState(HiveClientImpl.scala:268)
at
org.apache.spark.sql.hive.client.HiveClientImpl.databaseExists(HiveClientImpl.scala:345)
at
org.apache.spark.sql.hive.HiveExternalCatalog$$anonfun$databaseExists$1.apply$mcZ$sp(HiveExternalCatalog.scala:178)
at
org.apache.spark.sql.hive.HiveExternalCatalog$$anonfun$databaseExists$1.apply(HiveExternalCatalog.scala:178)
at
org.apache.spark.sql.hive.HiveExternalCatalog$$anonfun$databaseExists$1.apply(HiveExternalCatalog.scala:178)
at
org.apache.spark.sql.hive.HiveExternalCatalog.withClient(HiveExternalCatalog.scala:97)
at
org.apache.spark.sql.hive.HiveExternalCatalog.databaseExists(HiveExternalCatalog.scala:177)
at
org.apache.spark.sql.catalyst.catalog.SessionCatalog.databaseExists(SessionCatalog.scala:190)
at
org.apache.spark.sql.catalyst.catalog.SessionCatalog.org$apache$spark$sql$catalyst$catalog$SessionCatalog$$requireDbExists(SessionCatalog.scala:130)
at
org.apache.spark.sql.catalyst.catalog.SessionCatalog.getTableMetadata(SessionCatalog.scala:288)
at
org.apache.spark.sql.catalyst.catalog.SessionCatalog.getTempViewOrPermanentTableMetadata(SessionCatalog.scala:464)
at
org.apache.spark.sql.internal.CatalogImpl.org$apache$spark$sql$internal$CatalogImpl$$makeTable(CatalogImpl.scala:103)
at
org.apache.spark.sql.internal.CatalogImpl$$anonfun$2.apply(CatalogImpl.scala:98)
at
org.apache.spark.sql.internal.CatalogImpl$$anonfun$2.apply(CatalogImpl.scala:98)
at
scala.collection.TraversableLike$$anonfun$map$1.apply(TraversableLike.scala:234)
at
scala.collection.TraversableLike$$anonfun$map$1.apply(TraversableLike.scala:234)
at
scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59)
at scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:48)
at scala.collection.TraversableLike$class.map(TraversableLike.scala:234)
at scala.collection.AbstractTraversable.map(Traversable.scala:104)
at
org.apache.spark.sql.internal.CatalogImpl.listTables(CatalogImpl.scala:98)
{code}
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