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Posted to users@zeppelin.apache.org by Alec Lee <al...@gmail.com> on 2017/01/05 16:52:26 UTC
pyspark can't run through
Hello, all
I recently come cross good tool - zeppelin, it is easy to use. But I have some troubles to make pyspark work in my server. The code below used to work fine, but for no reason it pop up errors like permission deny.
Code********
%pyspark
import pandas
## http://blog.csdn.net/lsshlsw/article/details/53768756
## possible error, fix as above
PlateText = sc.textFile("hdfs://node9:54310/user/hadoop/tmp/plate_A216E6.csv")
header = PlateText.first()
#print header
#print PlateText.count()
Error msg ***********
Traceback (most recent call last):
File "/tmp/zeppelin_pyspark-7122867288384299951.py", line 267, in <module>
raise Exception(traceback.format_exc())
Exception: Traceback (most recent call last):
File "/tmp/zeppelin_pyspark-7122867288384299951.py", line 265, in <module>
exec(code)
File "<stdin>", line 3, in <module>
File "/opt/spark-2.0.2-bin-hadoop2.7/python/pyspark/rdd.py", line 1328, in first
rs = self.take(1)
File "/opt/spark-2.0.2-bin-hadoop2.7/python/pyspark/rdd.py", line 1310, in take
res = self.context.runJob(self, takeUpToNumLeft, p)
File "/opt/spark-2.0.2-bin-hadoop2.7/python/pyspark/context.py", line 933, in runJob
port = self._jvm.PythonRDD.runJob(self._jsc.sc(), mappedRDD._jrdd, partitions)
File "/opt/spark-2.0.2-bin-hadoop2.7/python/lib/py4j-0.10.3-src.zip/py4j/java_gateway.py", line 1133, in __call__
answer, self.gateway_client, self.target_id, self.name)
File "/opt/spark-2.0.2-bin-hadoop2.7/python/pyspark/sql/utils.py", line 63, in deco
return f(*a, **kw)
File "/opt/spark-2.0.2-bin-hadoop2.7/python/lib/py4j-0.10.3-src.zip/py4j/protocol.py", line 319, in get_return_value
format(target_id, ".", name), value)
Py4JJavaError: An error occurred while calling z:org.apache.spark.api.python.PythonRDD.runJob.
: org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 in stage 0.0 failed 4 times, most recent failure: Lost task 0.3 in stage 0.0 (TID 3, 192.168.168.29): java.io.IOException: Cannot run program "/opt/spark-2.0.2-bin-hadoop2.7/python": error=13, Permission denied
at java.lang.ProcessBuilder.start(ProcessBuilder.java:1048)
at org.apache.spark.api.python.PythonWorkerFactory.startDaemon(PythonWorkerFactory.scala:163)
at org.apache.spark.api.python.PythonWorkerFactory.createThroughDaemon(PythonWorkerFactory.scala:89)
at org.apache.spark.api.python.PythonWorkerFactory.create(PythonWorkerFactory.scala:65)
at org.apache.spark.SparkEnv.createPythonWorker(SparkEnv.scala:114)
at org.apache.spark.api.python.PythonRunner.compute(PythonRDD.scala:128)
at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:63)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:319)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:283)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:70)
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)
Caused by: java.io.IOException: error=13, Permission denied
at java.lang.UNIXProcess.forkAndExec(Native Method)
at java.lang.UNIXProcess.<init>(UNIXProcess.java:248)
at java.lang.ProcessImpl.start(ProcessImpl.java:134)
at java.lang.ProcessBuilder.start(ProcessBuilder.java:1029)
... 14 more
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$1.run(EventLoop.scala:48)
at org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:632)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1873)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1886)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1899)
at org.apache.spark.api.python.PythonRDD$.runJob(PythonRDD.scala:441)
at org.apache.spark.api.python.PythonRDD.runJob(PythonRDD.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:497)
at py4j.reflection.MethodInvoker.invoke(MethodInvoker.java:237)
at py4j.reflection.ReflectionEngine.invoke(ReflectionEngine.java:357)
at py4j.Gateway.invoke(Gateway.java:280)
at py4j.commands.AbstractCommand.invokeMethod(AbstractCommand.java:132)
at py4j.commands.CallCommand.execute(CallCommand.java:79)
at py4j.GatewayConnection.run(GatewayConnection.java:214)
at java.lang.Thread.run(Thread.java:745)
Caused by: java.io.IOException: Cannot run program "/opt/spark-2.0.2-bin-hadoop2.7/python": error=13, Permission denied
at java.lang.ProcessBuilder.start(ProcessBuilder.java:1048)
at org.apache.spark.api.python.PythonWorkerFactory.startDaemon(PythonWorkerFactory.scala:163)
at org.apache.spark.api.python.PythonWorkerFactory.createThroughDaemon(PythonWorkerFactory.scala:89)
at org.apache.spark.api.python.PythonWorkerFactory.create(PythonWorkerFactory.scala:65)
at org.apache.spark.SparkEnv.createPythonWorker(SparkEnv.scala:114)
at org.apache.spark.api.python.PythonRunner.compute(PythonRDD.scala:128)
at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:63)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:319)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:283)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:70)
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)
... 1 more
Caused by: java.io.IOException: error=13, Permission denied
at java.lang.UNIXProcess.forkAndExec(Native Method)
at java.lang.UNIXProcess.<init>(UNIXProcess.java:248)
at java.lang.ProcessImpl.start(ProcessImpl.java:134)
at java.lang.ProcessBuilder.start(ProcessBuilder.java:1029)
... 14 more
I install zeppelin with root user, and all the zeppelin ownership is root, what user permission zeppelin suppose to have? Here I also post the zeppelin-env.sh
export SPARK_HOME=/opt/spark
export PYSPARK_PYTHON=/opt/spark/python
export PYTHONPATH=/opt/spark/python/lib/py4j-0.10.4-src.zip:/opt/spark/python:
I also correspondingly make the changes in zeppelin interpreter.
thanks
AL
Re: pyspark can't run through
Posted by "Jianfeng (Jeff) Zhang" <jz...@hortonworks.com>.
That means the user who launch zeppelin don’t have permission to use python. Please switch to another user with proper permission.
Py4JJavaError: An error occurred while calling z:org.apache.spark.api.python.PythonRDD.runJob.
: org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 in stage 0.0 failed 4 times, most recent failure: Lost task 0.3 in stage 0.0 (TID 3, 192.168.168.29): java.io.IOException: Cannot run program "/opt/spark-2.0.2-bin-hadoop2.7/python": error=13, Permission denied
Best Regard,
Jeff Zhang
From: Alec Lee <al...@gmail.com>>
Reply-To: "users@zeppelin.apache.org<ma...@zeppelin.apache.org>" <us...@zeppelin.apache.org>>
Date: Friday, January 6, 2017 at 12:52 AM
To: "users@zeppelin.apache.org<ma...@zeppelin.apache.org>" <us...@zeppelin.apache.org>>
Subject: pyspark can't run through
Hello, all
I recently come cross good tool - zeppelin, it is easy to use. But I have some troubles to make pyspark work in my server. The code below used to work fine, but for no reason it pop up errors like permission deny.
Code********
%pyspark
import pandas
## http://blog.csdn.net/lsshlsw/article/details/53768756
## possible error, fix as above
PlateText = sc.textFile("hdfs://node9:54310/user/hadoop/tmp/plate_A216E6.csv")
header = PlateText.first()
#print header
#print PlateText.count()
Error msg ***********
Traceback (most recent call last):
File "/tmp/zeppelin_pyspark-7122867288384299951.py", line 267, in <module>
raise Exception(traceback.format_exc())
Exception: Traceback (most recent call last):
File "/tmp/zeppelin_pyspark-7122867288384299951.py", line 265, in <module>
exec(code)
File "<stdin>", line 3, in <module>
File "/opt/spark-2.0.2-bin-hadoop2.7/python/pyspark/rdd.py", line 1328, in first
rs = self.take(1)
File "/opt/spark-2.0.2-bin-hadoop2.7/python/pyspark/rdd.py", line 1310, in take
res = self.context.runJob(self, takeUpToNumLeft, p)
File "/opt/spark-2.0.2-bin-hadoop2.7/python/pyspark/context.py", line 933, in runJob
port = self._jvm.PythonRDD.runJob(self._jsc.sc(), mappedRDD._jrdd, partitions)
File "/opt/spark-2.0.2-bin-hadoop2.7/python/lib/py4j-0.10.3-src.zip/py4j/java_gateway.py", line 1133, in __call__
answer, self.gateway_client, self.target_id, self.name)
File "/opt/spark-2.0.2-bin-hadoop2.7/python/pyspark/sql/utils.py", line 63, in deco
return f(*a, **kw)
File "/opt/spark-2.0.2-bin-hadoop2.7/python/lib/py4j-0.10.3-src.zip/py4j/protocol.py", line 319, in get_return_value
format(target_id, ".", name), value)
Py4JJavaError: An error occurred while calling z:org.apache.spark.api.python.PythonRDD.runJob.
: org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 in stage 0.0 failed 4 times, most recent failure: Lost task 0.3 in stage 0.0 (TID 3, 192.168.168.29): java.io.IOException: Cannot run program "/opt/spark-2.0.2-bin-hadoop2.7/python": error=13, Permission denied
at java.lang.ProcessBuilder.start(ProcessBuilder.java:1048)
at org.apache.spark.api.python.PythonWorkerFactory.startDaemon(PythonWorkerFactory.scala:163)
at org.apache.spark.api.python.PythonWorkerFactory.createThroughDaemon(PythonWorkerFactory.scala:89)
at org.apache.spark.api.python.PythonWorkerFactory.create(PythonWorkerFactory.scala:65)
at org.apache.spark.SparkEnv.createPythonWorker(SparkEnv.scala:114)
at org.apache.spark.api.python.PythonRunner.compute(PythonRDD.scala:128)
at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:63)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:319)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:283)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:70)
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)
Caused by: java.io.IOException: error=13, Permission denied
at java.lang.UNIXProcess.forkAndExec(Native Method)
at java.lang.UNIXProcess.<init>(UNIXProcess.java:248)
at java.lang.ProcessImpl.start(ProcessImpl.java:134)
at java.lang.ProcessBuilder.start(ProcessBuilder.java:1029)
... 14 more
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$1.run(EventLoop.scala:48)
at org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:632)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1873)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1886)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:1899)
at org.apache.spark.api.python.PythonRDD$.runJob(PythonRDD.scala:441)
at org.apache.spark.api.python.PythonRDD.runJob(PythonRDD.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:497)
at py4j.reflection.MethodInvoker.invoke(MethodInvoker.java:237)
at py4j.reflection.ReflectionEngine.invoke(ReflectionEngine.java:357)
at py4j.Gateway.invoke(Gateway.java:280)
at py4j.commands.AbstractCommand.invokeMethod(AbstractCommand.java:132)
at py4j.commands.CallCommand.execute(CallCommand.java:79)
at py4j.GatewayConnection.run(GatewayConnection.java:214)
at java.lang.Thread.run(Thread.java:745)
Caused by: java.io.IOException: Cannot run program "/opt/spark-2.0.2-bin-hadoop2.7/python": error=13, Permission denied
at java.lang.ProcessBuilder.start(ProcessBuilder.java:1048)
at org.apache.spark.api.python.PythonWorkerFactory.startDaemon(PythonWorkerFactory.scala:163)
at org.apache.spark.api.python.PythonWorkerFactory.createThroughDaemon(PythonWorkerFactory.scala:89)
at org.apache.spark.api.python.PythonWorkerFactory.create(PythonWorkerFactory.scala:65)
at org.apache.spark.SparkEnv.createPythonWorker(SparkEnv.scala:114)
at org.apache.spark.api.python.PythonRunner.compute(PythonRDD.scala:128)
at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:63)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:319)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:283)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:70)
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)
... 1 more
Caused by: java.io.IOException: error=13, Permission denied
at java.lang.UNIXProcess.forkAndExec(Native Method)
at java.lang.UNIXProcess.<init>(UNIXProcess.java:248)
at java.lang.ProcessImpl.start(ProcessImpl.java:134)
at java.lang.ProcessBuilder.start(ProcessBuilder.java:1029)
... 14 more
I install zeppelin with root user, and all the zeppelin ownership is root, what user permission zeppelin suppose to have? Here I also post the zeppelin-env.sh
export SPARK_HOME=/opt/spark
export PYSPARK_PYTHON=/opt/spark/python
export PYTHONPATH=/opt/spark/python/lib/py4j-0.10.4-src.zip:/opt/spark/python:
I also correspondingly make the changes in zeppelin interpreter.
thanks
AL