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Posted to issues@spark.apache.org by "Joshuawangzj (JIRA)" <ji...@apache.org> on 2017/06/10 08:40:18 UTC
[jira] [Updated] (SPARK-21045) Spark executor is blocked instead of
throwing exception because exception occur when python worker send
exception trace stack info to Java Gateway
[ https://issues.apache.org/jira/browse/SPARK-21045?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel ]
Joshuawangzj updated SPARK-21045:
---------------------------------
Description:
My pyspark program is always blocking in product yarn cluster. Then I jstack and found :
{code}
"Executor task launch worker for task 0" #60 daemon prio=5 os_prio=31 tid=0x00007fb2f44e3000 nid=0xa003 runnable [0x0000000123b4a000]
java.lang.Thread.State: RUNNABLE
at java.net.SocketInputStream.socketRead0(Native Method)
at java.net.SocketInputStream.socketRead(SocketInputStream.java:116)
at java.net.SocketInputStream.read(SocketInputStream.java:170)
at java.net.SocketInputStream.read(SocketInputStream.java:141)
at java.io.BufferedInputStream.fill(BufferedInputStream.java:246)
at java.io.BufferedInputStream.read(BufferedInputStream.java:265)
- locked <0x00000007acab1c98> (a java.io.BufferedInputStream)
at java.io.DataInputStream.readInt(DataInputStream.java:387)
at org.apache.spark.api.python.PythonRunner$$anon$1.read(PythonRDD.scala:190)
at org.apache.spark.api.python.PythonRunner$$anon$1.<init>(PythonRDD.scala:234)
at org.apache.spark.api.python.PythonRunner.compute(PythonRDD.scala:152)
at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:63)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:323)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:287)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
at org.apache.spark.scheduler.Task.run(Task.scala:99)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:322)
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)
{code}
It is blocking in socket read. I view the log on blocking executor and found error:
{code}
Traceback (most recent call last):
File "/opt/spark/python/lib/pyspark.zip/pyspark/worker.py", line 178, in main
write_with_length(traceback.format_exc().encode("utf-8"), outfile)
UnicodeDecodeError: 'ascii' codec can't decode byte 0xe4 in position 618: ordinal not in range(128)
{code}
Finally I found the problem:
{code:title=worker.py|borderStyle=solid}
# 178 line in spark 2.1.1
except Exception:
try:
write_int(SpecialLengths.PYTHON_EXCEPTION_THROWN, outfile)
write_with_length(traceback.format_exc().encode("utf-8"), outfile)
except IOError:
# JVM close the socket
pass
except Exception:
# Write the error to stderr if it happened while serializing
print("PySpark worker failed with exception:", file=sys.stderr)
print(traceback.format_exc(), file=sys.stderr)
{code}
when write_with_length(traceback.format_exc().encode("utf-8"), outfile) occur exception like UnicodeDecodeError, the python worker can't send the trace info, but when the PythonRDD get PYTHON_EXCEPTION_THROWN, It should read the trace info length next. So it is blocking.
{code:title=PythonRDD.scala|borderStyle=solid}
# 190 line in spark 2.1.1
case SpecialLengths.PYTHON_EXCEPTION_THROWN =>
// Signals that an exception has been thrown in python
val exLength = stream.readInt() // It is possible to be blocked
{code}
was:
My pyspark program is always blocking in product yarn cluster. Then I jstack and found :
{code}
"Executor task launch worker for task 0" #60 daemon prio=5 os_prio=31 tid=0x00007fb2f44e3000 nid=0xa003 runnable [0x0000000123b4a000]
java.lang.Thread.State: RUNNABLE
at java.net.SocketInputStream.socketRead0(Native Method)
at java.net.SocketInputStream.socketRead(SocketInputStream.java:116)
at java.net.SocketInputStream.read(SocketInputStream.java:170)
at java.net.SocketInputStream.read(SocketInputStream.java:141)
at java.io.BufferedInputStream.fill(BufferedInputStream.java:246)
at java.io.BufferedInputStream.read(BufferedInputStream.java:265)
- locked <0x00000007acab1c98> (a java.io.BufferedInputStream)
at java.io.DataInputStream.readInt(DataInputStream.java:387)
at org.apache.spark.api.python.PythonRunner$$anon$1.read(PythonRDD.scala:190)
at org.apache.spark.api.python.PythonRunner$$anon$1.<init>(PythonRDD.scala:234)
at org.apache.spark.api.python.PythonRunner.compute(PythonRDD.scala:152)
at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:63)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:323)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:287)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
at org.apache.spark.scheduler.Task.run(Task.scala:99)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:322)
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)
{code}
It is blocking in socket read. I view the log on blocking executor and found error:
{code}
Traceback (most recent call last):
File "/Users/wangzejie/software/spark/python/lib/pyspark.zip/pyspark/worker.py", line 178, in main
write_with_length(traceback.format_exc().encode("utf-8"), outfile)
UnicodeDecodeError: 'ascii' codec can't decode byte 0xe4 in position 618: ordinal not in range(128)
{code}
Finally I found the problem:
{code:title=worker.py|borderStyle=solid}
# 178 line in spark 2.1.1
except Exception:
try:
write_int(SpecialLengths.PYTHON_EXCEPTION_THROWN, outfile)
write_with_length(traceback.format_exc().encode("utf-8"), outfile)
except IOError:
# JVM close the socket
pass
except Exception:
# Write the error to stderr if it happened while serializing
print("PySpark worker failed with exception:", file=sys.stderr)
print(traceback.format_exc(), file=sys.stderr)
{code}
when write_with_length(traceback.format_exc().encode("utf-8"), outfile) occur exception like UnicodeDecodeError, the python worker can't send the trace info, but when the PythonRDD get PYTHON_EXCEPTION_THROWN, It should read the trace info length next. So it is blocking.
{code:title=PythonRDD.scala|borderStyle=solid}
# 190 line in spark 2.1.1
case SpecialLengths.PYTHON_EXCEPTION_THROWN =>
// Signals that an exception has been thrown in python
val exLength = stream.readInt() // It is possible to be blocked
{code}
> Spark executor is blocked instead of throwing exception because exception occur when python worker send exception trace stack info to Java Gateway
> --------------------------------------------------------------------------------------------------------------------------------------------------
>
> Key: SPARK-21045
> URL: https://issues.apache.org/jira/browse/SPARK-21045
> Project: Spark
> Issue Type: Bug
> Components: PySpark
> Affects Versions: 2.0.1, 2.0.2, 2.1.1
> Reporter: Joshuawangzj
>
> My pyspark program is always blocking in product yarn cluster. Then I jstack and found :
> {code}
> "Executor task launch worker for task 0" #60 daemon prio=5 os_prio=31 tid=0x00007fb2f44e3000 nid=0xa003 runnable [0x0000000123b4a000]
> java.lang.Thread.State: RUNNABLE
> at java.net.SocketInputStream.socketRead0(Native Method)
> at java.net.SocketInputStream.socketRead(SocketInputStream.java:116)
> at java.net.SocketInputStream.read(SocketInputStream.java:170)
> at java.net.SocketInputStream.read(SocketInputStream.java:141)
> at java.io.BufferedInputStream.fill(BufferedInputStream.java:246)
> at java.io.BufferedInputStream.read(BufferedInputStream.java:265)
> - locked <0x00000007acab1c98> (a java.io.BufferedInputStream)
> at java.io.DataInputStream.readInt(DataInputStream.java:387)
> at org.apache.spark.api.python.PythonRunner$$anon$1.read(PythonRDD.scala:190)
> at org.apache.spark.api.python.PythonRunner$$anon$1.<init>(PythonRDD.scala:234)
> at org.apache.spark.api.python.PythonRunner.compute(PythonRDD.scala:152)
> at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:63)
> at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:323)
> at org.apache.spark.rdd.RDD.iterator(RDD.scala:287)
> at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
> at org.apache.spark.scheduler.Task.run(Task.scala:99)
> at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:322)
> 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)
> {code}
> It is blocking in socket read. I view the log on blocking executor and found error:
> {code}
> Traceback (most recent call last):
> File "/opt/spark/python/lib/pyspark.zip/pyspark/worker.py", line 178, in main
> write_with_length(traceback.format_exc().encode("utf-8"), outfile)
> UnicodeDecodeError: 'ascii' codec can't decode byte 0xe4 in position 618: ordinal not in range(128)
> {code}
> Finally I found the problem:
> {code:title=worker.py|borderStyle=solid}
> # 178 line in spark 2.1.1
> except Exception:
> try:
> write_int(SpecialLengths.PYTHON_EXCEPTION_THROWN, outfile)
> write_with_length(traceback.format_exc().encode("utf-8"), outfile)
> except IOError:
> # JVM close the socket
> pass
> except Exception:
> # Write the error to stderr if it happened while serializing
> print("PySpark worker failed with exception:", file=sys.stderr)
> print(traceback.format_exc(), file=sys.stderr)
> {code}
> when write_with_length(traceback.format_exc().encode("utf-8"), outfile) occur exception like UnicodeDecodeError, the python worker can't send the trace info, but when the PythonRDD get PYTHON_EXCEPTION_THROWN, It should read the trace info length next. So it is blocking.
> {code:title=PythonRDD.scala|borderStyle=solid}
> # 190 line in spark 2.1.1
> case SpecialLengths.PYTHON_EXCEPTION_THROWN =>
> // Signals that an exception has been thrown in python
> val exLength = stream.readInt() // It is possible to be blocked
> {code}
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