Details
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Bug
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Status: Resolved
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Major
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Resolution: Duplicate
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2.2.0
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None
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None
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EMR 5.9.0
Description
One time in a month (~1000 runs) one of our spark applications freezes at startup. jstack says that there is a deadlock. Please see locks 0x00000000802c00c0 and 0x000000008271bb98 in stacktraces below.
"Driver": at java.lang.Package.getSystemPackage(Package.java:540) - waiting to lock <0x00000000802c00c0> (a java.util.HashMap) at java.lang.ClassLoader.getPackage(ClassLoader.java:1625) at java.net.URLClassLoader.getAndVerifyPackage(URLClassLoader.java:394) at java.net.URLClassLoader.definePackageInternal(URLClassLoader.java:420) at java.net.URLClassLoader.defineClass(URLClassLoader.java:452) at java.net.URLClassLoader.access$100(URLClassLoader.java:74) at java.net.URLClassLoader$1.run(URLClassLoader.java:369) at java.net.URLClassLoader$1.run(URLClassLoader.java:363) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:362) at java.lang.ClassLoader.loadClass(ClassLoader.java:424) - locked <0x0000000082789598> (a org.apache.spark.sql.hive.client.IsolatedClientLoader$$anon$1) at org.apache.spark.sql.hive.client.IsolatedClientLoader$$anon$1.doLoadClass(IsolatedClientLoader.scala:221) at org.apache.spark.sql.hive.client.IsolatedClientLoader$$anon$1.loadClass(IsolatedClientLoader.scala:210) at java.lang.ClassLoader.loadClass(ClassLoader.java:411) - locked <0x0000000082789540> (a org.apache.spark.sql.internal.NonClosableMutableURLClassLoader) at java.lang.ClassLoader.loadClass(ClassLoader.java:357) at java.lang.Class.forName0(Native Method) at java.lang.Class.forName(Class.java:348) at java.util.ServiceLoader$LazyIterator.nextService(ServiceLoader.java:370) at java.util.ServiceLoader$LazyIterator.next(ServiceLoader.java:404) at java.util.ServiceLoader$1.next(ServiceLoader.java:480) at javax.xml.parsers.FactoryFinder$1.run(FactoryFinder.java:294) at java.security.AccessController.doPrivileged(Native Method) at javax.xml.parsers.FactoryFinder.findServiceProvider(FactoryFinder.java:289) at javax.xml.parsers.FactoryFinder.find(FactoryFinder.java:267) at javax.xml.parsers.DocumentBuilderFactory.newInstance(DocumentBuilderFactory.java:120) at org.apache.hadoop.conf.Configuration.loadResource(Configuration.java:2516) at org.apache.hadoop.conf.Configuration.loadResources(Configuration.java:2492) at org.apache.hadoop.conf.Configuration.getProps(Configuration.java:2405) - locked <0x000000008271bb98> (a org.apache.hadoop.conf.Configuration) at org.apache.hadoop.conf.Configuration.get(Configuration.java:981) at org.apache.hadoop.conf.Configuration.getTrimmed(Configuration.java:1031) at org.apache.hadoop.conf.Configuration.getClass(Configuration.java:2189) at org.apache.hadoop.fs.FileSystem.getFileSystemClass(FileSystem.java:2702) at org.apache.hadoop.fs.FsUrlStreamHandlerFactory.createURLStreamHandler(FsUrlStreamHandlerFactory.java:74) at java.net.URL.getURLStreamHandler(URL.java:1142) at java.net.URL.<init>(URL.java:599) at java.net.URL.<init>(URL.java:490) at java.net.URL.<init>(URL.java:439) at java.net.JarURLConnection.parseSpecs(JarURLConnection.java:175) at java.net.JarURLConnection.<init>(JarURLConnection.java:158) at sun.net.www.protocol.jar.JarURLConnection.<init>(JarURLConnection.java:81) at sun.net.www.protocol.jar.Handler.openConnection(Handler.java:41) at java.net.URL.openConnection(URL.java:979) at java.net.URLClassLoader.getResourceAsStream(URLClassLoader.java:238) at org.apache.spark.sql.hive.client.IsolatedClientLoader$$anon$1.doLoadClass(IsolatedClientLoader.scala:216) at org.apache.spark.sql.hive.client.IsolatedClientLoader$$anon$1.loadClass(IsolatedClientLoader.scala:210) at java.lang.ClassLoader.loadClass(ClassLoader.java:411) - locked <0x0000000082789540> (a org.apache.spark.sql.internal.NonClosableMutableURLClassLoader) at java.lang.ClassLoader.loadClass(ClassLoader.java:357) at org.apache.spark.sql.hive.client.IsolatedClientLoader.createClient(IsolatedClientLoader.scala:262) at org.apache.spark.sql.hive.HiveUtils$.newClientForMetadata(HiveUtils.scala:362) at org.apache.spark.sql.hive.HiveUtils$.newClientForMetadata(HiveUtils.scala:266) at org.apache.spark.sql.hive.HiveExternalCatalog.client$lzycompute(HiveExternalCatalog.scala:66) - locked <0x000000008302a120> (a org.apache.spark.sql.hive.HiveExternalCatalog) at org.apache.spark.sql.hive.HiveExternalCatalog.client(HiveExternalCatalog.scala:65) at org.apache.spark.sql.hive.HiveExternalCatalog$$anonfun$databaseExists$1.apply$mcZ$sp(HiveExternalCatalog.scala:194) at org.apache.spark.sql.hive.HiveExternalCatalog$$anonfun$databaseExists$1.apply(HiveExternalCatalog.scala:194) at org.apache.spark.sql.hive.HiveExternalCatalog$$anonfun$databaseExists$1.apply(HiveExternalCatalog.scala:194) at org.apache.spark.sql.hive.HiveExternalCatalog.withClient(HiveExternalCatalog.scala:97) - locked <0x000000008302a120> (a org.apache.spark.sql.hive.HiveExternalCatalog) at org.apache.spark.sql.hive.HiveExternalCatalog.databaseExists(HiveExternalCatalog.scala:193) at org.apache.spark.sql.internal.SharedState.externalCatalog$lzycompute(SharedState.scala:105) - locked <0x0000000082d8bb80> (a org.apache.spark.sql.internal.SharedState) at org.apache.spark.sql.internal.SharedState.externalCatalog(SharedState.scala:93) at org.apache.spark.sql.hive.HiveSessionStateBuilder.externalCatalog(HiveSessionStateBuilder.scala:39) at org.apache.spark.sql.hive.HiveSessionStateBuilder.catalog$lzycompute(HiveSessionStateBuilder.scala:54) - locked <0x000000008302a180> (a org.apache.spark.sql.hive.HiveSessionStateBuilder) at org.apache.spark.sql.hive.HiveSessionStateBuilder.catalog(HiveSessionStateBuilder.scala:52) at org.apache.spark.sql.hive.HiveSessionStateBuilder.catalog(HiveSessionStateBuilder.scala:35) at org.apache.spark.sql.internal.BaseSessionStateBuilder.build(BaseSessionStateBuilder.scala:289) at org.apache.spark.sql.SparkSession$.org$apache$spark$sql$SparkSession$$instantiateSessionState(SparkSession.scala:1050) at org.apache.spark.sql.SparkSession$$anonfun$sessionState$2.apply(SparkSession.scala:130) at org.apache.spark.sql.SparkSession$$anonfun$sessionState$2.apply(SparkSession.scala:130) at scala.Option.getOrElse(Option.scala:121) at org.apache.spark.sql.SparkSession.sessionState$lzycompute(SparkSession.scala:129) - locked <0x0000000082d8bb40> (a org.apache.spark.sql.SparkSession) at org.apache.spark.sql.SparkSession.sessionState(SparkSession.scala:126) at org.apache.spark.sql.SparkSession$Builder$$anonfun$getOrCreate$5.apply(SparkSession.scala:938) at org.apache.spark.sql.SparkSession$Builder$$anonfun$getOrCreate$5.apply(SparkSession.scala:938) at scala.collection.mutable.HashMap$$anonfun$foreach$1.apply(HashMap.scala:99) at scala.collection.mutable.HashMap$$anonfun$foreach$1.apply(HashMap.scala:99) at scala.collection.mutable.HashTable$class.foreachEntry(HashTable.scala:230) at scala.collection.mutable.HashMap.foreachEntry(HashMap.scala:40) at scala.collection.mutable.HashMap.foreach(HashMap.scala:99) at org.apache.spark.sql.SparkSession$Builder.getOrCreate(SparkSession.scala:938) - locked <0x00000000805d7f48> (a org.apache.spark.sql.SparkSession$) - locked <0x00000000805d7f68> (a org.apache.spark.sql.SparkSession$Builder) at com.BatchPartitioner$.run(BatchPartitioner.scala:72) at com.BatchPartitioner$.main(BatchPartitioner.scala:59) at com.BatchPartitioner.main(BatchPartitioner.scala) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.apache.spark.deploy.yarn.ApplicationMaster$$anon$2.run(ApplicationMaster.scala:635)
"SparkUI-43": at org.apache.hadoop.conf.Configuration.getProps(Configuration.java:2401) - waiting to lock <0x000000008271bb98> (a org.apache.hadoop.conf.Configuration) at org.apache.hadoop.conf.Configuration.get(Configuration.java:981) at org.apache.hadoop.conf.Configuration.getTrimmed(Configuration.java:1031) at org.apache.hadoop.conf.Configuration.getClass(Configuration.java:2189) at org.apache.hadoop.fs.FileSystem.getFileSystemClass(FileSystem.java:2702) at org.apache.hadoop.fs.FsUrlStreamHandlerFactory.createURLStreamHandler(FsUrlStreamHandlerFactory.java:74) at java.net.URL.getURLStreamHandler(URL.java:1142) at java.net.URL.<init>(URL.java:420) at java.net.URL.<init>(URL.java:310) at java.net.URL.<init>(URL.java:333) at sun.net.www.ParseUtil.fileToEncodedURL(ParseUtil.java:272) at java.lang.Package$1.run(Package.java:579) at java.lang.Package$1.run(Package.java:570) at java.security.AccessController.doPrivileged(Native Method) at java.lang.Package.defineSystemPackage(Package.java:570) at java.lang.Package.getSystemPackage(Package.java:546) - locked <0x00000000802c00c0> (a java.util.HashMap) at java.lang.Package.getPackage(Package.java:336) at java.lang.Class.getPackage(Class.java:796) at com.fasterxml.jackson.databind.introspect.BasicClassIntrospector._isStdJDKCollection(BasicClassIntrospector.java:257) at com.fasterxml.jackson.databind.introspect.BasicClassIntrospector._findStdJdkCollectionDesc(BasicClassIntrospector.java:277) at com.fasterxml.jackson.databind.introspect.BasicClassIntrospector.forSerialization(BasicClassIntrospector.java:88) at com.fasterxml.jackson.databind.introspect.BasicClassIntrospector.forSerialization(BasicClassIntrospector.java:15) at com.fasterxml.jackson.databind.SerializationConfig.introspect(SerializationConfig.java:789) at com.fasterxml.jackson.databind.ser.BeanSerializerFactory.createSerializer(BeanSerializerFactory.java:134) at com.fasterxml.jackson.databind.SerializerProvider._createUntypedSerializer(SerializerProvider.java:1203) - locked <0x0000000082913c68> (a com.fasterxml.jackson.databind.ser.SerializerCache) at com.fasterxml.jackson.databind.SerializerProvider._createAndCacheUntypedSerializer(SerializerProvider.java:1157) at com.fasterxml.jackson.databind.SerializerProvider.findValueSerializer(SerializerProvider.java:481) at com.fasterxml.jackson.databind.SerializerProvider.findTypedValueSerializer(SerializerProvider.java:679) at com.fasterxml.jackson.databind.ser.DefaultSerializerProvider.serializeValue(DefaultSerializerProvider.java:107) at com.fasterxml.jackson.databind.ObjectMapper.writeValue(ObjectMapper.java:2383) at com.fasterxml.jackson.core.base.GeneratorBase.writeObject(GeneratorBase.java:324) at com.fasterxml.jackson.core.JsonGenerator.writeObjectField(JsonGenerator.java:1415) at com.codahale.metrics.json.MetricsModule$MetricRegistrySerializer.serialize(MetricsModule.java:186) at com.codahale.metrics.json.MetricsModule$MetricRegistrySerializer.serialize(MetricsModule.java:171) at com.fasterxml.jackson.databind.ser.DefaultSerializerProvider.serializeValue(DefaultSerializerProvider.java:130) at com.fasterxml.jackson.databind.ObjectMapper._configAndWriteValue(ObjectMapper.java:3559) at com.fasterxml.jackson.databind.ObjectMapper.writeValueAsString(ObjectMapper.java:2927) at org.apache.spark.metrics.sink.MetricsServlet.getMetricsSnapshot(MetricsServlet.scala:59) at org.apache.spark.metrics.sink.MetricsServlet$$anonfun$getHandlers$1.apply(MetricsServlet.scala:54) at org.apache.spark.metrics.sink.MetricsServlet$$anonfun$getHandlers$1.apply(MetricsServlet.scala:54) at org.apache.spark.ui.JettyUtils$$anon$3.doGet(JettyUtils.scala:90) at javax.servlet.http.HttpServlet.service(HttpServlet.java:687) at javax.servlet.http.HttpServlet.service(HttpServlet.java:790) at org.spark_project.jetty.servlet.ServletHolder.handle(ServletHolder.java:845) at org.spark_project.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:583) at org.spark_project.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1180) at org.spark_project.jetty.servlet.ServletHandler.doScope(ServletHandler.java:511) at org.spark_project.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1112) at org.spark_project.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:141) at org.spark_project.jetty.server.handler.ContextHandlerCollection.handle(ContextHandlerCollection.java:213) at org.spark_project.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:134) at org.spark_project.jetty.server.Server.handle(Server.java:524) at org.spark_project.jetty.server.HttpChannel.handle(HttpChannel.java:319) at org.spark_project.jetty.server.HttpConnection.onFillable(HttpConnection.java:253) at org.spark_project.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:273) at org.spark_project.jetty.io.FillInterest.fillable(FillInterest.java:95) at org.spark_project.jetty.io.SelectChannelEndPoint$2.run(SelectChannelEndPoint.java:93) at org.spark_project.jetty.util.thread.strategy.ExecuteProduceConsume.executeProduceConsume(ExecuteProduceConsume.java:303) at org.spark_project.jetty.util.thread.strategy.ExecuteProduceConsume.produceConsume(ExecuteProduceConsume.java:148) at org.spark_project.jetty.util.thread.strategy.ExecuteProduceConsume.run(ExecuteProduceConsume.java:136) at org.spark_project.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:671) at org.spark_project.jetty.util.thread.QueuedThreadPool$2.run(QueuedThreadPool.java:589) at java.lang.Thread.run(Thread.java:748)
It happens only with an application working with Hive. Others seem to be not affected.
Attachments
Attachments
Issue Links
- duplicates
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SPARK-26961 Found Java-level deadlock in Spark Driver
- Resolved
- is related to
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SPARK-26961 Found Java-level deadlock in Spark Driver
- Resolved