[jira] [Created] (FLINK-15216) Can't use rocksdb with hdfs filesystem with flink-s3-fs-hadoop

[Shang Yuanchun (Jira)]

Tank created FLINK-15216:
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             Summary: Can't use rocksdb with hdfs filesystem with flink-s3-fs-hadoop
                 Key: FLINK-15216
                 URL: https://issues.apache.org/jira/browse/FLINK-15216
             Project: Flink
          Issue Type: Bug
          Components: FileSystems
    Affects Versions: 1.9.0
            Reporter: Tank


Setup:
Flink 1.9.0 packaged with EMR 5.28 (uses hadoop 2.8.5)

After adding flink-s3-fs-hadoop to the plugins or libs directory, I was not able to use rocksdb with hdfs filesystem.

 

To replicate:

 

Add rocksdb checkpoint & savepoint configuration to /etc/flink/conf/flink-conf.yaml

state.backend: rocksdb
state.backend.incremental: true
state.savepoints.dir: hdfs://<path>savepoints/
state.checkpoints.dir: hdfs://<path>/checkpoints/

 

copy  flink-s3-fs-hadoop to plugins directory

 

{{cp ./opt/flink-s3-fs-hadoop-1.9.0.jar ./plugins/s3-fs-hadoop/}}

 

Start any job:

 

flink run -m yarn-cluster -yid ${app_id} -yn 1 -p 1 /usr/lib/flink/examples/streaming/WordCount.jar

 

Looks like the hadoop classes packaged in flink-s3-fs-hadoop are interfering with flink runtime.

{{org.apache.flink.client.program.ProgramInvocationException: Could not retrieve the execution result. (JobID: b2d8b907839d82dda5e7407248941d4d)org.apache.flink.client.program.ProgramInvocationException: Could not retrieve the execution result. (JobID: b2d8b907839d82dda5e7407248941d4d) at org.apache.flink.client.program.rest.RestClusterClient.submitJob(RestClusterClient.java:255) at org.apache.flink.client.program.ClusterClient.run(ClusterClient.java:338) at org.apache.flink.streaming.api.environment.StreamContextEnvironment.execute(StreamContextEnvironment.java:60) at org.apache.flink.streaming.api.environment.StreamExecutionEnvironment.execute(StreamExecutionEnvironment.java:1507) at org.apache.flink.streaming.examples.wordcount.WordCount.main(WordCount.java:89) 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.flink.client.program.PackagedProgram.callMainMethod(PackagedProgram.java:576) at org.apache.flink.client.program.PackagedProgram.invokeInteractiveModeForExecution(PackagedProgram.java:438) at org.apache.flink.client.program.ClusterClient.run(ClusterClient.java:274) at org.apache.flink.client.cli.CliFrontend.executeProgram(CliFrontend.java:746) at org.apache.flink.client.cli.CliFrontend.runProgram(CliFrontend.java:273) at org.apache.flink.client.cli.CliFrontend.run(CliFrontend.java:205) at org.apache.flink.client.cli.CliFrontend.parseParameters(CliFrontend.java:1010) at org.apache.flink.client.cli.CliFrontend.lambda$main$10(CliFrontend.java:1083) at java.security.AccessController.doPrivileged(Native Method) at javax.security.auth.Subject.doAs(Subject.java:422) at org.apache.hadoop.security.UserGroupInformation.doAs(UserGroupInformation.java:1844) at org.apache.flink.runtime.security.HadoopSecurityContext.runSecured(HadoopSecurityContext.java:41) at org.apache.flink.client.cli.CliFrontend.main(CliFrontend.java:1083)Caused by: org.apache.flink.runtime.client.JobSubmissionException: Failed to submit JobGraph. at org.apache.flink.client.program.rest.RestClusterClient.lambda$submitJob$8(RestClusterClient.java:382) at java.util.concurrent.CompletableFuture.uniExceptionally(CompletableFuture.java:870) at java.util.concurrent.CompletableFuture$UniExceptionally.tryFire(CompletableFuture.java:852) at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:474) at java.util.concurrent.CompletableFuture.completeExceptionally(CompletableFuture.java:1977) at org.apache.flink.runtime.concurrent.FutureUtils.lambda$retryOperationWithDelay$8(FutureUtils.java:263) at java.util.concurrent.CompletableFuture.uniWhenComplete(CompletableFuture.java:760) at java.util.concurrent.CompletableFuture$UniWhenComplete.tryFire(CompletableFuture.java:736) at java.util.concurrent.CompletableFuture.postComplete(CompletableFuture.java:474) at java.util.concurrent.CompletableFuture.postFire(CompletableFuture.java:561) at java.util.concurrent.CompletableFuture$UniCompose.tryFire(CompletableFuture.java:929) at java.util.concurrent.CompletableFuture$Completion.run(CompletableFuture.java:442) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) at java.lang.Thread.run(Thread.java:748)Caused by: org.apache.flink.runtime.rest.util.RestClientException: [Internal server error., <Exception on server side:org.apache.flink.runtime.client.JobSubmissionException: Failed to submit job. at org.apache.flink.runtime.dispatcher.Dispatcher.lambda$internalSubmitJob$2(Dispatcher.java:333) at java.util.concurrent.CompletableFuture.uniHandle(CompletableFuture.java:822) at java.util.concurrent.CompletableFuture$UniHandle.tryFire(CompletableFuture.java:797) at java.util.concurrent.CompletableFuture$Completion.run(CompletableFuture.java:442) at akka.dispatch.TaskInvocation.run(AbstractDispatcher.scala:40) at akka.dispatch.ForkJoinExecutorConfigurator$AkkaForkJoinTask.exec(ForkJoinExecutorConfigurator.scala:44) at akka.dispatch.forkjoin.ForkJoinTask.doExec(ForkJoinTask.java:260) at akka.dispatch.forkjoin.ForkJoinPool$WorkQueue.runTask(ForkJoinPool.java:1339) at akka.dispatch.forkjoin.ForkJoinPool.runWorker(ForkJoinPool.java:1979) at akka.dispatch.forkjoin.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:107)Caused by: java.lang.RuntimeException: org.apache.flink.runtime.client.JobExecutionException: Could not set up JobManager at org.apache.flink.util.function.CheckedSupplier.lambda$unchecked$0(CheckedSupplier.java:36) at java.util.concurrent.CompletableFuture$AsyncSupply.run(CompletableFuture.java:1590) ... 6 moreCaused by: org.apache.flink.runtime.client.JobExecutionException: Could not set up JobManager at org.apache.flink.runtime.jobmaster.JobManagerRunner.<init>(JobManagerRunner.java:152) at org.apache.flink.runtime.dispatcher.DefaultJobManagerRunnerFactory.createJobManagerRunner(DefaultJobManagerRunnerFactory.java:83) at org.apache.flink.runtime.dispatcher.Dispatcher.lambda$createJobManagerRunner$5(Dispatcher.java:375) at org.apache.flink.util.function.CheckedSupplier.lambda$unchecked$0(CheckedSupplier.java:34) ... 7 moreCaused by: org.apache.flink.util.FlinkRuntimeException: Failed to create checkpoint storage at checkpoint coordinator side. at org.apache.flink.runtime.checkpoint.CheckpointCoordinator.<init>(CheckpointCoordinator.java:255) at org.apache.flink.runtime.executiongraph.ExecutionGraph.enableCheckpointing(ExecutionGraph.java:594) at org.apache.flink.runtime.executiongraph.ExecutionGraphBuilder.buildGraph(ExecutionGraphBuilder.java:340) at org.apache.flink.runtime.executiongraph.ExecutionGraphBuilder.buildGraph(ExecutionGraphBuilder.java:106) at org.apache.flink.runtime.scheduler.LegacyScheduler.createExecutionGraph(LegacyScheduler.java:207) at org.apache.flink.runtime.scheduler.LegacyScheduler.createAndRestoreExecutionGraph(LegacyScheduler.java:184) at org.apache.flink.runtime.scheduler.LegacyScheduler.<init>(LegacyScheduler.java:176) at org.apache.flink.runtime.scheduler.LegacySchedulerFactory.createInstance(LegacySchedulerFactory.java:70) at org.apache.flink.runtime.jobmaster.JobMaster.createScheduler(JobMaster.java:275) at org.apache.flink.runtime.jobmaster.JobMaster.<init>(JobMaster.java:265) at org.apache.flink.runtime.jobmaster.factories.DefaultJobMasterServiceFactory.createJobMasterService(DefaultJobMasterServiceFactory.java:98) at org.apache.flink.runtime.jobmaster.factories.DefaultJobMasterServiceFactory.createJobMasterService(DefaultJobMasterServiceFactory.java:40) at org.apache.flink.runtime.jobmaster.JobManagerRunner.<init>(JobManagerRunner.java:146) ... 10 moreCaused by: org.apache.flink.core.fs.UnsupportedFileSystemSchemeException: Could not find a file system implementation for scheme 'hdfs'. The scheme is not directly supported by Flink and no Hadoop file system to support this scheme could be loaded. at org.apache.flink.core.fs.FileSystem.getUnguardedFileSystem(FileSystem.java:447) at org.apache.flink.core.fs.FileSystem.get(FileSystem.java:359) at org.apache.flink.core.fs.Path.getFileSystem(Path.java:298) at org.apache.flink.runtime.state.filesystem.FsCheckpointStorage.<init>(FsCheckpointStorage.java:61) at org.apache.flink.runtime.state.filesystem.FsStateBackend.createCheckpointStorage(FsStateBackend.java:490) at org.apache.flink.contrib.streaming.state.RocksDBStateBackend.createCheckpointStorage(RocksDBStateBackend.java:458) at org.apache.flink.runtime.checkpoint.CheckpointCoordinator.<init>(CheckpointCoordinator.java:253) ... 22 moreCaused by: org.apache.flink.core.fs.UnsupportedFileSystemSchemeException: Cannot support file system for 'hdfs' via Hadoop, because Hadoop is not in the classpath, or some classes are missing from the classpath. at org.apache.flink.runtime.fs.hdfs.HadoopFsFactory.create(HadoopFsFactory.java:179) at org.apache.flink.core.fs.FileSystem.getUnguardedFileSystem(FileSystem.java:443) ... 28 moreCaused by: java.lang.NoClassDefFoundError: org/apache/flink/fs/shaded/hadoop3/org/apache/hadoop/hdfs/HdfsConfiguration at org.apache.flink.runtime.fs.hdfs.HadoopFsFactory.create(HadoopFsFactory.java:85) ... 29 moreCaused by: java.lang.ClassNotFoundException: org.apache.flink.fs.shaded.hadoop3.org.apache.hadoop.hdfs.HdfsConfiguration at java.net.URLClassLoader.findClass(URLClassLoader.java:382) at java.lang.ClassLoader.loadClass(ClassLoader.java:424) at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:349) at java.lang.ClassLoader.loadClass(ClassLoader.java:357) ... 30 more}}
{{End of exception on server side>] at org.apache.flink.runtime.rest.RestClient.parseResponse(RestClient.java:389) at org.apache.flink.runtime.rest.RestClient.lambda$submitRequest$3(RestClient.java:373) at java.util.concurrent.CompletableFuture.uniCompose(CompletableFuture.java:952) at java.util.concurrent.CompletableFuture$UniCompose.tryFire(CompletableFuture.java:926) ... 4 more}}



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