[
https://issues.apache.org/jira/browse/SPARK-25491?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=16624977#comment-16624977
]
Ofer Fridman commented on SPARK-25491:
--------------------------------------
[~hyukjin.kwon], here is both the exception trace and the pandas versions:
can be reproduce on both pandas, 0.19.2 and 0.23.4
Full exception trace:
{quote}
2018-09-23 08:48:30 WARN NativeCodeLoader:62 - Unable to load native-hadoop
library for your platform... using builtin-java classes where applicable
Setting default log level to "WARN".
To adjust logging level use sc.setLogLevel(newLevel). For SparkR, use
setLogLevel(newLevel).
2018-09-23 08:48:31 WARN Utils:66 - Service 'SparkUI' could not bind on port
4040. Attempting port 4041.
[Stage 7:====================================================> (93 + 1) /
100]2018-09-23 08:48:43 ERROR Executor:91 - Exception in task 18.0 in stage 7.0
(TID 119)
org.apache.spark.SparkException: Python worker exited unexpectedly (crashed)
at
org.apache.spark.api.python.BasePythonRunner$ReaderIterator$$anonfun$1.applyOrElse(PythonRunner.scala:333)
at
org.apache.spark.api.python.BasePythonRunner$ReaderIterator$$anonfun$1.applyOrElse(PythonRunner.scala:322)
at
scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:36)
at
org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:177)
at
org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:121)
at
org.apache.spark.api.python.BasePythonRunner$ReaderIterator.hasNext(PythonRunner.scala:252)
at
org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:37)
at scala.collection.Iterator$$anon$12.hasNext(Iterator.scala:439)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408)
at
org.apache.spark.sql.catalyst.expressions.GeneratedClass$GeneratedIteratorForCodegenStage3.processNext(Unknown
Source)
at
org.apache.spark.sql.execution.BufferedRowIterator.hasNext(BufferedRowIterator.java:43)
at
org.apache.spark.sql.execution.WholeStageCodegenExec$$anonfun$10$$anon$1.hasNext(WholeStageCodegenExec.scala:614)
at
org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:253)
at
org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:247)
at
org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$25.apply(RDD.scala:830)
at
org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$25.apply(RDD.scala:830)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:38)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:324)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:288)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:38)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:324)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:288)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
at org.apache.spark.scheduler.Task.run(Task.scala:109)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:345)
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: java.io.EOFException
at java.io.DataInputStream.readInt(DataInputStream.java:392)
at
org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:158)
... 24 more
2018-09-23 08:48:43 WARN TaskSetManager:66 - Lost task 18.0 in stage 7.0 (TID
119, localhost, executor driver): org.apache.spark.SparkException: Python
worker exited unexpectedly (crashed)
at
org.apache.spark.api.python.BasePythonRunner$ReaderIterator$$anonfun$1.applyOrElse(PythonRunner.scala:333)
at
org.apache.spark.api.python.BasePythonRunner$ReaderIterator$$anonfun$1.applyOrElse(PythonRunner.scala:322)
at
scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:36)
at
org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:177)
at
org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:121)
at
org.apache.spark.api.python.BasePythonRunner$ReaderIterator.hasNext(PythonRunner.scala:252)
at
org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:37)
at scala.collection.Iterator$$anon$12.hasNext(Iterator.scala:439)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408)
at
org.apache.spark.sql.catalyst.expressions.GeneratedClass$GeneratedIteratorForCodegenStage3.processNext(Unknown
Source)
at
org.apache.spark.sql.execution.BufferedRowIterator.hasNext(BufferedRowIterator.java:43)
at
org.apache.spark.sql.execution.WholeStageCodegenExec$$anonfun$10$$anon$1.hasNext(WholeStageCodegenExec.scala:614)
at
org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:253)
at
org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:247)
at
org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$25.apply(RDD.scala:830)
at
org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$25.apply(RDD.scala:830)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:38)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:324)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:288)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:38)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:324)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:288)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
at org.apache.spark.scheduler.Task.run(Task.scala:109)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:345)
at
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
at java.lang.Thread.run(Thread.java:748)
Caused by: java.io.EOFException
at java.io.DataInputStream.readInt(DataInputStream.java:392)
at
org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:158)
... 24 more
2018-09-23 08:48:43 ERROR TaskSetManager:70 - Task 18 in stage 7.0 failed 1
times; aborting job
Traceback (most recent call last):
File
"/homes/oferfrid/work/python/projects/mepy_algo/appcode/REM/users_stuff/oferfrid/pyspark_error/pyspark_out_error.py",
line 28, in <module>
data_df.groupby(data_df.id).apply(return_mat_group).show()
File
"/homes/oferfrid/work/virtual_envs/spark_fix/local/lib/python2.7/site-packages/pyspark/sql/dataframe.py",
line 350, in show
print(self._jdf.showString(n, 20, vertical))
File
"/homes/oferfrid/work/virtual_envs/spark_fix/local/lib/python2.7/site-packages/py4j/java_gateway.py",
line 1257, in __call__
answer, self.gateway_client, self.target_id, self.name)
File
"/homes/oferfrid/work/virtual_envs/spark_fix/local/lib/python2.7/site-packages/pyspark/sql/utils.py",
line 63, in deco
return f(*a, **kw)
File
"/homes/oferfrid/work/virtual_envs/spark_fix/local/lib/python2.7/site-packages/py4j/protocol.py",
line 328, in get_return_value
format(target_id, ".", name), value)
py4j.protocol.Py4JJavaError: An error occurred while calling o54.showString.
: org.apache.spark.SparkException: Job aborted due to stage failure: Task 18 in
stage 7.0 failed 1 times, most recent failure: Lost task 18.0 in stage 7.0 (TID
119, localhost, executor driver): org.apache.spark.SparkException: Python
worker exited unexpectedly (crashed)
at
org.apache.spark.api.python.BasePythonRunner$ReaderIterator$$anonfun$1.applyOrElse(PythonRunner.scala:333)
at
org.apache.spark.api.python.BasePythonRunner$ReaderIterator$$anonfun$1.applyOrElse(PythonRunner.scala:322)
at
scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:36)
at
org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:177)
at
org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:121)
at
org.apache.spark.api.python.BasePythonRunner$ReaderIterator.hasNext(PythonRunner.scala:252)
at
org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:37)
at scala.collection.Iterator$$anon$12.hasNext(Iterator.scala:439)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408)
at
org.apache.spark.sql.catalyst.expressions.GeneratedClass$GeneratedIteratorForCodegenStage3.processNext(Unknown
Source)
at
org.apache.spark.sql.execution.BufferedRowIterator.hasNext(BufferedRowIterator.java:43)
at
org.apache.spark.sql.execution.WholeStageCodegenExec$$anonfun$10$$anon$1.hasNext(WholeStageCodegenExec.scala:614)
at
org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:253)
at
org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:247)
at
org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$25.apply(RDD.scala:830)
at
org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$25.apply(RDD.scala:830)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:38)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:324)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:288)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:38)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:324)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:288)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
at org.apache.spark.scheduler.Task.run(Task.scala:109)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:345)
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: java.io.EOFException
at java.io.DataInputStream.readInt(DataInputStream.java:392)
at
org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:158)
... 24 more
Driver stacktrace:
at
org.apache.spark.scheduler.DAGScheduler.org$apache$spark$scheduler$DAGScheduler$$failJobAndIndependentStages(DAGScheduler.scala:1602)
at
org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1590)
at
org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1589)
at
scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59)
at scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:48)
at org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:1589)
at
org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:831)
at
org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:831)
at scala.Option.foreach(Option.scala:257)
at
org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:831)
at
org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:1823)
at
org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1772)
at
org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1761)
at org.apache.spark.util.EventLoop$$anon$1.run(EventLoop.scala:48)
at org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:642)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2034)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2055)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2074)
at org.apache.spark.sql.execution.SparkPlan.executeTake(SparkPlan.scala:363)
at
org.apache.spark.sql.execution.CollectLimitExec.executeCollect(limit.scala:38)
at
org.apache.spark.sql.Dataset.org$apache$spark$sql$Dataset$$collectFromPlan(Dataset.scala:3273)
at org.apache.spark.sql.Dataset$$anonfun$head$1.apply(Dataset.scala:2484)
at org.apache.spark.sql.Dataset$$anonfun$head$1.apply(Dataset.scala:2484)
at org.apache.spark.sql.Dataset$$anonfun$52.apply(Dataset.scala:3254)
at
org.apache.spark.sql.execution.SQLExecution$.withNewExecutionId(SQLExecution.scala:77)
at org.apache.spark.sql.Dataset.withAction(Dataset.scala:3253)
at org.apache.spark.sql.Dataset.head(Dataset.scala:2484)
at org.apache.spark.sql.Dataset.take(Dataset.scala:2698)
at org.apache.spark.sql.Dataset.showString(Dataset.scala:254)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at py4j.reflection.MethodInvoker.invoke(MethodInvoker.java:244)
at py4j.reflection.ReflectionEngine.invoke(ReflectionEngine.java:357)
at py4j.Gateway.invoke(Gateway.java:282)
at py4j.commands.AbstractCommand.invokeMethod(AbstractCommand.java:132)
at py4j.commands.CallCommand.execute(CallCommand.java:79)
at py4j.GatewayConnection.run(GatewayConnection.java:238)
at java.lang.Thread.run(Thread.java:748)
Caused by: org.apache.spark.SparkException: Python worker exited unexpectedly
(crashed)
at
org.apache.spark.api.python.BasePythonRunner$ReaderIterator$$anonfun$1.applyOrElse(PythonRunner.scala:333)
at
org.apache.spark.api.python.BasePythonRunner$ReaderIterator$$anonfun$1.applyOrElse(PythonRunner.scala:322)
at
scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:36)
at
org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:177)
at
org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:121)
at
org.apache.spark.api.python.BasePythonRunner$ReaderIterator.hasNext(PythonRunner.scala:252)
at
org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:37)
at scala.collection.Iterator$$anon$12.hasNext(Iterator.scala:439)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408)
at
org.apache.spark.sql.catalyst.expressions.GeneratedClass$GeneratedIteratorForCodegenStage3.processNext(Unknown
Source)
at
org.apache.spark.sql.execution.BufferedRowIterator.hasNext(BufferedRowIterator.java:43)
at
org.apache.spark.sql.execution.WholeStageCodegenExec$$anonfun$10$$anon$1.hasNext(WholeStageCodegenExec.scala:614)
at
org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:253)
at
org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:247)
at
org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$25.apply(RDD.scala:830)
at
org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$25.apply(RDD.scala:830)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:38)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:324)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:288)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:38)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:324)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:288)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
at org.apache.spark.scheduler.Task.run(Task.scala:109)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:345)
at
java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
... 1 more
Caused by: java.io.EOFException
at java.io.DataInputStream.readInt(DataInputStream.java:392)
at
org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:158)
... 24 more
{quote}
> pandas_udf(GROUPED_MAP) fails when using ArrayType(ArrayType(DoubleType()))
> -----------------------------------------------------------------------------
>
> Key: SPARK-25491
> URL: https://issues.apache.org/jira/browse/SPARK-25491
> Project: Spark
> Issue Type: Bug
> Components: PySpark
> Affects Versions: 2.3.1
> Environment: Linux
> python 2.7.9
> pyspark 2.3.1 (also reproduces on pyspark 2.3.0)
> pyarrow 0.9.0 (working OK when using pyarrow 0.8.0)
> Reporter: Ofer Fridman
> Priority: Major
>
> After upgrading from pyarrow-0.8.0 to pyarrow-0.9.0 using pandas_udf (in
> PandasUDFType.GROUPED_MAP), results in an error:
> {quote}Caused by: java.io.EOFException
> at java.io.DataInputStream.readInt(DataInputStream.java:392)
> at
> org.apache.spark.sql.execution.python.ArrowPythonRunner$$anon$1.read(ArrowPythonRunner.scala:158)
> ... 24 more
> {quote}
> The problem occurs only when using complex type like
> ArrayType(ArrayType(DoubleType())) usege of ArrayType(DoubleType()) did not
> reproduce this issue.
> here is a simple example to reproduce this issue:
> {quote}import pandas as pd
> import numpy as np
> from pyspark.sql import SparkSession
> from pyspark.context import SparkContext, SparkConf
> from pyspark.sql.types import *
> import pyspark.sql.functions as sprk_func
> sp_conf =
> SparkConf().setAppName("stam").setMaster("local[1]").set('spark.driver.memory','4g')
> sc = SparkContext(conf=sp_conf)
> spark = SparkSession(sc)
> pd_data = pd.DataFrame(\{'id':(np.random.rand(20)*10).astype(int)})
> data_df = spark.createDataFrame(pd_data,StructType([StructField('id',
> IntegerType(), True)]))
> @sprk_func.pandas_udf(StructType([StructField('mat',
> ArrayType(ArrayType(DoubleType())), True)]),
> sprk_func.PandasUDFType.GROUPED_MAP)
> def return_mat_group(group):
> pd_data = pd.DataFrame(\{'mat': np.random.rand(7, 4, 4).tolist()})
> return pd_data
> data_df.groupby(data_df.id).apply(return_mat_group).show(){quote}
>
>
>
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