[ https://issues.apache.org/jira/browse/SPARK-18649?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel ]
Jay Goldman updated SPARK-18649: -------------------------------- Comment: was deleted (was: Oops - wrong stack trace, here is the one i meant to include: java.util.NoSuchElementException: next on empty iterator at scala.collection.Iterator$$anon$2.next(Iterator.scala:39) at scala.collection.Iterator$$anon$2.next(Iterator.scala:37) at scala.collection.IndexedSeqLike$Elements.next(IndexedSeqLike.scala:63) at org.apache.spark.sql.execution.datasources.FileScanRDD$$anon$1.nextIterator(FileScanRDD.scala:111) at org.apache.spark.sql.execution.datasources.FileScanRDD$$anon$1.hasNext(FileScanRDD.scala:91) at org.apache.spark.sql.catalyst.expressions.GeneratedClass$GeneratedIterator.agg_doAggregateWithoutKey$(Unknown Source) at org.apache.spark.sql.catalyst.expressions.GeneratedClass$GeneratedIterator.processNext(Unknown Source) at org.apache.spark.sql.execution.BufferedRowIterator.hasNext(BufferedRowIterator.java:43) at org.apache.spark.sql.execution.WholeStageCodegenExec$$anonfun$8$$anon$1.hasNext(WholeStageCodegenExec.scala:370) at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408) at org.apache.spark.shuffle.sort.BypassMergeSortShuffleWriter.write(BypassMergeSortShuffleWriter.java:125) at org.apache.spark.scheduler.ShuffleMapTask.runTask(ShuffleMapTask.scala:79) at org.apache.spark.scheduler.ShuffleMapTask.runTask(ShuffleMapTask.scala:47) at org.apache.spark.scheduler.Task.run(Task.scala:86) at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:274) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617) at java.lang.Thread.run(Thread.java:745) 16/11/30 09:31:07 ERROR TaskSetManager: Task 0 in stage 0.0 failed 1 times; aborting job Exception in thread "main" org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 in stage 0.0 failed 1 times, most recent failure: Lost task 0.0 in stage 0.0 (TID 0, localhost): java.util.NoSuchElementException: next on empty iterator at scala.collection.Iterator$$anon$2.next(Iterator.scala:39) at scala.collection.Iterator$$anon$2.next(Iterator.scala:37) at scala.collection.IndexedSeqLike$Elements.next(IndexedSeqLike.scala:63) at org.apache.spark.sql.execution.datasources.FileScanRDD$$anon$1.nextIterator(FileScanRDD.scala:111) at org.apache.spark.sql.execution.datasources.FileScanRDD$$anon$1.hasNext(FileScanRDD.scala:91) at org.apache.spark.sql.catalyst.expressions.GeneratedClass$GeneratedIterator.agg_doAggregateWithoutKey$(Unknown Source) at org.apache.spark.sql.catalyst.expressions.GeneratedClass$GeneratedIterator.processNext(Unknown Source) at org.apache.spark.sql.execution.BufferedRowIterator.hasNext(BufferedRowIterator.java:43) at org.apache.spark.sql.execution.WholeStageCodegenExec$$anonfun$8$$anon$1.hasNext(WholeStageCodegenExec.scala:370) at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408) at org.apache.spark.shuffle.sort.BypassMergeSortShuffleWriter.write(BypassMergeSortShuffleWriter.java:125) at org.apache.spark.scheduler.ShuffleMapTask.runTask(ShuffleMapTask.scala:79) at org.apache.spark.scheduler.ShuffleMapTask.runTask(ShuffleMapTask.scala:47) at org.apache.spark.scheduler.Task.run(Task.scala:86) at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:274) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617) at java.lang.Thread.run(Thread.java:745) Driver stacktrace: at org.apache.spark.scheduler.DAGScheduler.org$apache$spark$scheduler$DAGScheduler$$failJobAndIndependentStages(DAGScheduler.scala:1454) at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1442) at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1441) at scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59) at scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:48) at org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:1441) at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:811) at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:811) at scala.Option.foreach(Option.scala:257) at org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:811) at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:1667) at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1622) at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1611) at org.apache.spark.util.EventLoop$$anon$1.run(EventLoop.scala:48) at org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:632) at org.apache.spark.SparkContext.runJob(SparkContext.scala:1890) at org.apache.spark.SparkContext.runJob(SparkContext.scala:1903) at org.apache.spark.SparkContext.runJob(SparkContext.scala:1916) at org.apache.spark.SparkContext.runJob(SparkContext.scala:1930) at org.apache.spark.rdd.RDD$$anonfun$collect$1.apply(RDD.scala:912) at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151) at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:112) at org.apache.spark.rdd.RDD.withScope(RDD.scala:358) at org.apache.spark.rdd.RDD.collect(RDD.scala:911) at org.apache.spark.sql.execution.SparkPlan.executeCollect(SparkPlan.scala:290) at org.apache.spark.sql.Dataset$$anonfun$org$apache$spark$sql$Dataset$$execute$1$1.apply(Dataset.scala:2193) at org.apache.spark.sql.execution.SQLExecution$.withNewExecutionId(SQLExecution.scala:57) at org.apache.spark.sql.Dataset.withNewExecutionId(Dataset.scala:2546) at org.apache.spark.sql.Dataset.org$apache$spark$sql$Dataset$$execute$1(Dataset.scala:2192) at org.apache.spark.sql.Dataset.org$apache$spark$sql$Dataset$$collect(Dataset.scala:2199) at org.apache.spark.sql.Dataset$$anonfun$count$1.apply(Dataset.scala:2227) at org.apache.spark.sql.Dataset$$anonfun$count$1.apply(Dataset.scala:2226) at org.apache.spark.sql.Dataset.withCallback(Dataset.scala:2559) at org.apache.spark.sql.Dataset.count(Dataset.scala:2226) at edu.mit.ll.bb.ingest.LogAsMaps$$anonfun$makeDataset$1.apply(LogAsMaps.scala:275) at edu.mit.ll.bb.ingest.LogAsMaps$$anonfun$makeDataset$1.apply(LogAsMaps.scala:232) at scala.collection.IndexedSeqOptimized$class.foreach(IndexedSeqOptimized.scala:33) at scala.collection.mutable.ArrayOps$ofRef.foreach(ArrayOps.scala:186) at edu.mit.ll.bb.ingest.LogAsMaps$.makeDataset(LogAsMaps.scala:232) at edu.mit.ll.bb.ingest.LogAsMaps$.apply(LogAsMaps.scala:179) at edu.mit.ll.bb.ingest.LogAsMaps$.makeLog(LogAsMaps.scala:396) at edu.mit.ll.bb.app.BrowseApp$.delayedEndpoint$edu$mit$ll$bb$app$BrowseApp$1(BrowseApp.scala:103) at edu.mit.ll.bb.app.BrowseApp$delayedInit$body.apply(BrowseApp.scala:18) at scala.Function0$class.apply$mcV$sp(Function0.scala:34) at scala.runtime.AbstractFunction0.apply$mcV$sp(AbstractFunction0.scala:12) at scala.App$$anonfun$main$1.apply(App.scala:76) at scala.App$$anonfun$main$1.apply(App.scala:76) at scala.collection.immutable.List.foreach(List.scala:381) at scala.collection.generic.TraversableForwarder$class.foreach(TraversableForwarder.scala:35) at scala.App$class.main(App.scala:76) at edu.mit.ll.bb.app.SingleEventFileApp.main(SingleEventFileApp.scala:6) at edu.mit.ll.bb.app.BrowseApp.main(BrowseApp.scala) Caused by: java.util.NoSuchElementException: next on empty iterator at scala.collection.Iterator$$anon$2.next(Iterator.scala:39) at scala.collection.Iterator$$anon$2.next(Iterator.scala:37) at scala.collection.IndexedSeqLike$Elements.next(IndexedSeqLike.scala:63) at org.apache.spark.sql.execution.datasources.FileScanRDD$$anon$1.nextIterator(FileScanRDD.scala:111) at org.apache.spark.sql.execution.datasources.FileScanRDD$$anon$1.hasNext(FileScanRDD.scala:91) at org.apache.spark.sql.catalyst.expressions.GeneratedClass$GeneratedIterator.agg_doAggregateWithoutKey$(Unknown Source) at org.apache.spark.sql.catalyst.expressions.GeneratedClass$GeneratedIterator.processNext(Unknown Source) at org.apache.spark.sql.execution.BufferedRowIterator.hasNext(BufferedRowIterator.java:43) at org.apache.spark.sql.execution.WholeStageCodegenExec$$anonfun$8$$anon$1.hasNext(WholeStageCodegenExec.scala:370) at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408) at org.apache.spark.shuffle.sort.BypassMergeSortShuffleWriter.write(BypassMergeSortShuffleWriter.java:125) at org.apache.spark.scheduler.ShuffleMapTask.runTask(ShuffleMapTask.scala:79) at org.apache.spark.scheduler.ShuffleMapTask.runTask(ShuffleMapTask.scala:47) at org.apache.spark.scheduler.Task.run(Task.scala:86) at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:274) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617) at java.lang.Thread.run(Thread.java:745) Disconnected from the target VM, address: '127.0.0.1:64555', transport: 'socket') > sc.textFile(my_file).collect() raises socket.timeout on large files > ------------------------------------------------------------------- > > Key: SPARK-18649 > URL: https://issues.apache.org/jira/browse/SPARK-18649 > Project: Spark > Issue Type: Bug > Components: PySpark > Environment: PySpark version 1.6.2 > Reporter: Erik Cederstrand > > I'm trying to load a file into the driver with this code: > contents = sc.textFile('hdfs://path/to/big_file.csv').collect() > Loading into the driver instead of creating a distributed RDD is intentional > in this case. The file is ca. 6GB, and I have adjusted driver memory > accordingly to fit the local data. After some time, my spark/submitted job > crashes with the stack trace below. > I have traced this to pyspark/rdd.py where the _load_from_socket() method > creates a socket with a hard-coded timeout of 3 seconds (this code is also > present in HEAD although I'm on PySpark 1.6.2). Raising this hard-coded value > to e.g. 600 lets me read the entire file. > Is there any reason that this value does not use e.g. the > 'spark.network.timeout' setting instead? > Traceback (most recent call last): > File "my_textfile_test.py", line 119, in <module> > contents = sc.textFile('hdfs://path/to/file.csv').collect() > File "/usr/hdp/2.5.0.0-1245/spark/python/lib/pyspark.zip/pyspark/rdd.py", > line 772, in collect > File "/usr/hdp/2.5.0.0-1245/spark/python/lib/pyspark.zip/pyspark/rdd.py", > line 142, in _load_from_socket > File > "/usr/hdp/2.5.0.0-1245/spark/python/lib/pyspark.zip/pyspark/serializers.py", > line 517, in load_stream > File > "/usr/hdp/2.5.0.0-1245/spark/python/lib/pyspark.zip/pyspark/serializers.py", > line 511, in loads > File "/usr/lib/python2.7/socket.py", line 380, in read > data = self._sock.recv(left) > socket.timeout: timed out > 16/11/30 13:33:14 WARN Utils: Suppressing exception in finally: Broken pipe > java.net.SocketException: Broken pipe > at java.net.SocketOutputStream.socketWrite0(Native Method) > at java.net.SocketOutputStream.socketWrite(SocketOutputStream.java:109) > at java.net.SocketOutputStream.write(SocketOutputStream.java:153) > at > java.io.BufferedOutputStream.flushBuffer(BufferedOutputStream.java:82) > at java.io.BufferedOutputStream.flush(BufferedOutputStream.java:140) > at java.io.DataOutputStream.flush(DataOutputStream.java:123) > at java.io.FilterOutputStream.close(FilterOutputStream.java:158) > at > org.apache.spark.api.python.PythonRDD$$anon$2$$anonfun$run$2.apply$mcV$sp(PythonRDD.scala:650) > at org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1248) > at > org.apache.spark.api.python.PythonRDD$$anon$2.run(PythonRDD.scala:649) > Suppressed: java.net.SocketException: Broken pipe > at java.net.SocketOutputStream.socketWrite0(Native Method) > at > java.net.SocketOutputStream.socketWrite(SocketOutputStream.java:109) > at > java.net.SocketOutputStream.write(SocketOutputStream.java:153) > at > java.io.BufferedOutputStream.flushBuffer(BufferedOutputStream.java:82) > at > java.io.BufferedOutputStream.flush(BufferedOutputStream.java:140) > at java.io.FilterOutputStream.close(FilterOutputStream.java:158) > at java.io.FilterOutputStream.close(FilterOutputStream.java:159) > ... 3 more > 16/11/30 13:33:14 ERROR PythonRDD: Error while sending iterator > java.net.SocketException: Connection reset > at java.net.SocketOutputStream.socketWrite(SocketOutputStream.java:113) > at java.net.SocketOutputStream.write(SocketOutputStream.java:153) > at > java.io.BufferedOutputStream.flushBuffer(BufferedOutputStream.java:82) > at java.io.BufferedOutputStream.write(BufferedOutputStream.java:126) > at java.io.DataOutputStream.write(DataOutputStream.java:107) > at java.io.FilterOutputStream.write(FilterOutputStream.java:97) > at org.apache.spark.api.python.PythonRDD$.writeUTF(PythonRDD.scala:622) > at > org.apache.spark.api.python.PythonRDD$.org$apache$spark$api$python$PythonRDD$$write$1(PythonRDD.scala:442) > at > org.apache.spark.api.python.PythonRDD$$anonfun$writeIteratorToStream$1.apply(PythonRDD.scala:452) > at > org.apache.spark.api.python.PythonRDD$$anonfun$writeIteratorToStream$1.apply(PythonRDD.scala:452) > at scala.collection.Iterator$class.foreach(Iterator.scala:727) > at scala.collection.AbstractIterator.foreach(Iterator.scala:1157) > at > org.apache.spark.api.python.PythonRDD$.writeIteratorToStream(PythonRDD.scala:452) > at > org.apache.spark.api.python.PythonRDD$$anon$2$$anonfun$run$1.apply$mcV$sp(PythonRDD.scala:648) > at > org.apache.spark.api.python.PythonRDD$$anon$2$$anonfun$run$1.apply(PythonRDD.scala:648) > at > org.apache.spark.api.python.PythonRDD$$anon$2$$anonfun$run$1.apply(PythonRDD.scala:648) > at org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1239) > at > org.apache.spark.api.python.PythonRDD$$anon$2.run(PythonRDD.scala:649) > Suppressed: java.net.SocketException: Broken pipe > at java.net.SocketOutputStream.socketWrite0(Native Method) > at > java.net.SocketOutputStream.socketWrite(SocketOutputStream.java:109) > at > java.net.SocketOutputStream.write(SocketOutputStream.java:153) > at > java.io.BufferedOutputStream.flushBuffer(BufferedOutputStream.java:82) > at > java.io.BufferedOutputStream.flush(BufferedOutputStream.java:140) > at java.io.DataOutputStream.flush(DataOutputStream.java:123) > at java.io.FilterOutputStream.close(FilterOutputStream.java:158) > at > org.apache.spark.api.python.PythonRDD$$anon$2$$anonfun$run$2.apply$mcV$sp(PythonRDD.scala:650) > at > org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1248) > ... 1 more > Suppressed: java.net.SocketException: Broken pipe > at java.net.SocketOutputStream.socketWrite0(Native > Method) > at > java.net.SocketOutputStream.socketWrite(SocketOutputStream.java:109) > at > java.net.SocketOutputStream.write(SocketOutputStream.java:153) > at > java.io.BufferedOutputStream.flushBuffer(BufferedOutputStream.java:82) > at > java.io.BufferedOutputStream.flush(BufferedOutputStream.java:140) > at > java.io.FilterOutputStream.close(FilterOutputStream.java:158) > at > java.io.FilterOutputStream.close(FilterOutputStream.java:159) > ... 3 more -- This message was sent by Atlassian JIRA (v6.3.4#6332) --------------------------------------------------------------------- To unsubscribe, e-mail: issues-unsubscr...@spark.apache.org For additional commands, e-mail: issues-h...@spark.apache.org