【发布时间】：2019-12-08 18:27:28
【问题描述】：
我在 pyspark 中将 scipy 函数作为 udf 运行时遇到问题。
我在 EMR 实例上运行 jupyter notebook。通过 ssh-ing 到主节点并使用，例如，安装了必要的 python 包
sudo pip install scipy
据我了解，这应该在所有节点上安装软件包。我现在正在尝试运行 anova-function scipy.stats.f_oneway，它在非分布式模式下运行良好：
# testing the function locally
scipy.stats.f_oneway([32,4,4], [321,43,4]).pvalue
0.3366941400375204
但是，当我尝试创建一个 udf 函数以使用 pyspark 运行它时：
# calculate anova p-value
def anova_pvalue(normal_cols, tumor_cols):
s = scipy.stats.f_oneway(normal_cols, tumor_cols).pvalue
return(s.item())
# register as udf
udf_anova_pvalue = f.udf(anova_pvalue, DoubleType())
# apply anova udf
df_result = df_result.withColumn('anova',udf_anova_pvalue(f.array(normal_cols), f.array(tumor_cols))).select('Protein_gene', 'log2FC', 'anova').toPandas()
我收到错误消息“ImportError: No module named scipy.stats”（完整消息如下）。不知何故，似乎 scipy 没有正确安装在工作节点上？
感谢您的帮助！
An error occurred while calling o11539.collectToPython.
: org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 in stage 9.0 failed 4 times, most recent failure: Lost task 0.3 in stage 9.0 (TID 59, ip-172-31-45-16.eu-central-1.compute.internal, executor 4): org.apache.spark.api.python.PythonException: Traceback (most recent call last):
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 366, in main
func, profiler, deserializer, serializer = read_udfs(pickleSer, infile, eval_type)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 241, in read_udfs
arg_offsets, udf = read_single_udf(pickleSer, infile, eval_type, runner_conf)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 168, in read_single_udf
f, return_type = read_command(pickleSer, infile)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 69, in read_command
command = serializer._read_with_length(file)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/serializers.py", line 172, in _read_with_length
return self.loads(obj)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/serializers.py", line 583, in loads
return pickle.loads(obj)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/cloudpickle.py", line 875, in subimport
__import__(name)
ImportError: No module named scipy.stats
at org.apache.spark.api.python.BasePythonRunner$ReaderIterator.handlePythonException(PythonRunner.scala:452)
at org.apache.spark.sql.execution.python.PythonUDFRunner$$anon$1.read(PythonUDFRunner.scala:81)
at org.apache.spark.sql.execution.python.PythonUDFRunner$$anon$1.read(PythonUDFRunner.scala:64)
at org.apache.spark.api.python.BasePythonRunner$ReaderIterator.hasNext(PythonRunner.scala:406)
at org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:37)
at scala.collection.Iterator$$anon$12.hasNext(Iterator.scala:440)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:409)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:409)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:409)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:291)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:283)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:836)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:836)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:52)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:324)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:288)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:90)
at org.apache.spark.scheduler.Task.run(Task.scala:121)
at org.apache.spark.executor.Executor$TaskRunner$$anonfun$10.apply(Executor.scala:408)
at org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1360)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:414)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
at java.lang.Thread.run(Thread.java:748)
Driver stacktrace:
at org.apache.spark.scheduler.DAGScheduler.org$apache$spark$scheduler$DAGScheduler$$failJobAndIndependentStages(DAGScheduler.scala:2041)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:2029)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:2028)
at scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59)
at scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:48)
at org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:2028)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:966)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:966)
at scala.Option.foreach(Option.scala:257)
at org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:966)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:2262)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:2211)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:2200)
at org.apache.spark.util.EventLoop$$anon$1.run(EventLoop.scala:49)
at org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:777)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2061)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2082)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2101)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2126)
at org.apache.spark.rdd.RDD$$anonfun$collect$1.apply(RDD.scala:945)
at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151)
at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:112)
at org.apache.spark.rdd.RDD.withScope(RDD.scala:363)
at org.apache.spark.rdd.RDD.collect(RDD.scala:944)
at org.apache.spark.sql.execution.SparkPlan.executeCollect(SparkPlan.scala:335)
at org.apache.spark.sql.Dataset$$anonfun$collectToPython$1.apply(Dataset.scala:3257)
at org.apache.spark.sql.Dataset$$anonfun$collectToPython$1.apply(Dataset.scala:3254)
at org.apache.spark.sql.Dataset$$anonfun$53.apply(Dataset.scala:3364)
at org.apache.spark.sql.execution.SQLExecution$$anonfun$withNewExecutionId$1.apply(SQLExecution.scala:78)
at org.apache.spark.sql.execution.SQLExecution$.withSQLConfPropagated(SQLExecution.scala:125)
at org.apache.spark.sql.execution.SQLExecution$.withNewExecutionId(SQLExecution.scala:73)
at org.apache.spark.sql.Dataset.withAction(Dataset.scala:3363)
at org.apache.spark.sql.Dataset.collectToPython(Dataset.scala:3254)
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.api.python.PythonException: Traceback (most recent call last):
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 366, in main
func, profiler, deserializer, serializer = read_udfs(pickleSer, infile, eval_type)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 241, in read_udfs
arg_offsets, udf = read_single_udf(pickleSer, infile, eval_type, runner_conf)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 168, in read_single_udf
f, return_type = read_command(pickleSer, infile)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 69, in read_command
command = serializer._read_with_length(file)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/serializers.py", line 172, in _read_with_length
return self.loads(obj)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/serializers.py", line 583, in loads
return pickle.loads(obj)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/cloudpickle.py", line 875, in subimport
__import__(name)
ImportError: No module named scipy.stats
at org.apache.spark.api.python.BasePythonRunner$ReaderIterator.handlePythonException(PythonRunner.scala:452)
at org.apache.spark.sql.execution.python.PythonUDFRunner$$anon$1.read(PythonUDFRunner.scala:81)
at org.apache.spark.sql.execution.python.PythonUDFRunner$$anon$1.read(PythonUDFRunner.scala:64)
at org.apache.spark.api.python.BasePythonRunner$ReaderIterator.hasNext(PythonRunner.scala:406)
at org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:37)
at scala.collection.Iterator$$anon$12.hasNext(Iterator.scala:440)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:409)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:409)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:409)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:291)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:283)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:836)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:836)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:52)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:324)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:288)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:90)
at org.apache.spark.scheduler.Task.run(Task.scala:121)
at org.apache.spark.executor.Executor$TaskRunner$$anonfun$10.apply(Executor.scala:408)
at org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1360)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:414)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
... 1 more
Traceback (most recent call last):
File "/usr/lib/spark/python/lib/pyspark.zip/pyspark/sql/dataframe.py", line 2142, in toPandas
pdf = pd.DataFrame.from_records(self.collect(), columns=self.columns)
File "/usr/lib/spark/python/lib/pyspark.zip/pyspark/sql/dataframe.py", line 533, in collect
sock_info = self._jdf.collectToPython()
File "/usr/lib/spark/python/lib/py4j-0.10.7-src.zip/py4j/java_gateway.py", line 1257, in __call__
answer, self.gateway_client, self.target_id, self.name)
File "/usr/lib/spark/python/lib/pyspark.zip/pyspark/sql/utils.py", line 63, in deco
return f(*a, **kw)
File "/usr/lib/spark/python/lib/py4j-0.10.7-src.zip/py4j/protocol.py", line 328, in get_return_value
format(target_id, ".", name), value)
Py4JJavaError: An error occurred while calling o11539.collectToPython.
: org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 in stage 9.0 failed 4 times, most recent failure: Lost task 0.3 in stage 9.0 (TID 59, ip-172-31-45-16.eu-central-1.compute.internal, executor 4): org.apache.spark.api.python.PythonException: Traceback (most recent call last):
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 366, in main
func, profiler, deserializer, serializer = read_udfs(pickleSer, infile, eval_type)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 241, in read_udfs
arg_offsets, udf = read_single_udf(pickleSer, infile, eval_type, runner_conf)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 168, in read_single_udf
f, return_type = read_command(pickleSer, infile)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 69, in read_command
command = serializer._read_with_length(file)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/serializers.py", line 172, in _read_with_length
return self.loads(obj)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/serializers.py", line 583, in loads
return pickle.loads(obj)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/cloudpickle.py", line 875, in subimport
__import__(name)
ImportError: No module named scipy.stats
at org.apache.spark.api.python.BasePythonRunner$ReaderIterator.handlePythonException(PythonRunner.scala:452)
at org.apache.spark.sql.execution.python.PythonUDFRunner$$anon$1.read(PythonUDFRunner.scala:81)
at org.apache.spark.sql.execution.python.PythonUDFRunner$$anon$1.read(PythonUDFRunner.scala:64)
at org.apache.spark.api.python.BasePythonRunner$ReaderIterator.hasNext(PythonRunner.scala:406)
at org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:37)
at scala.collection.Iterator$$anon$12.hasNext(Iterator.scala:440)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:409)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:409)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:409)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:291)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:283)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:836)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:836)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:52)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:324)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:288)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:90)
at org.apache.spark.scheduler.Task.run(Task.scala:121)
at org.apache.spark.executor.Executor$TaskRunner$$anonfun$10.apply(Executor.scala:408)
at org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1360)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:414)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
at java.lang.Thread.run(Thread.java:748)
Driver stacktrace:
at org.apache.spark.scheduler.DAGScheduler.org$apache$spark$scheduler$DAGScheduler$$failJobAndIndependentStages(DAGScheduler.scala:2041)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:2029)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:2028)
at scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59)
at scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:48)
at org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:2028)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:966)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:966)
at scala.Option.foreach(Option.scala:257)
at org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:966)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:2262)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:2211)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:2200)
at org.apache.spark.util.EventLoop$$anon$1.run(EventLoop.scala:49)
at org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:777)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2061)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2082)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2101)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2126)
at org.apache.spark.rdd.RDD$$anonfun$collect$1.apply(RDD.scala:945)
at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151)
at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:112)
at org.apache.spark.rdd.RDD.withScope(RDD.scala:363)
at org.apache.spark.rdd.RDD.collect(RDD.scala:944)
at org.apache.spark.sql.execution.SparkPlan.executeCollect(SparkPlan.scala:335)
at org.apache.spark.sql.Dataset$$anonfun$collectToPython$1.apply(Dataset.scala:3257)
at org.apache.spark.sql.Dataset$$anonfun$collectToPython$1.apply(Dataset.scala:3254)
at org.apache.spark.sql.Dataset$$anonfun$53.apply(Dataset.scala:3364)
at org.apache.spark.sql.execution.SQLExecution$$anonfun$withNewExecutionId$1.apply(SQLExecution.scala:78)
at org.apache.spark.sql.execution.SQLExecution$.withSQLConfPropagated(SQLExecution.scala:125)
at org.apache.spark.sql.execution.SQLExecution$.withNewExecutionId(SQLExecution.scala:73)
at org.apache.spark.sql.Dataset.withAction(Dataset.scala:3363)
at org.apache.spark.sql.Dataset.collectToPython(Dataset.scala:3254)
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.api.python.PythonException: Traceback (most recent call last):
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 366, in main
func, profiler, deserializer, serializer = read_udfs(pickleSer, infile, eval_type)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 241, in read_udfs
arg_offsets, udf = read_single_udf(pickleSer, infile, eval_type, runner_conf)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 168, in read_single_udf
f, return_type = read_command(pickleSer, infile)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/worker.py", line 69, in read_command
command = serializer._read_with_length(file)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/serializers.py", line 172, in _read_with_length
return self.loads(obj)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/serializers.py", line 583, in loads
return pickle.loads(obj)
File "/mnt/yarn/usercache/livy/appcache/application_1564560726600_0001/container_1564560726600_0001_01_000008/pyspark.zip/pyspark/cloudpickle.py", line 875, in subimport
__import__(name)
ImportError: No module named scipy.stats
at org.apache.spark.api.python.BasePythonRunner$ReaderIterator.handlePythonException(PythonRunner.scala:452)
at org.apache.spark.sql.execution.python.PythonUDFRunner$$anon$1.read(PythonUDFRunner.scala:81)
at org.apache.spark.sql.execution.python.PythonUDFRunner$$anon$1.read(PythonUDFRunner.scala:64)
at org.apache.spark.api.python.BasePythonRunner$ReaderIterator.hasNext(PythonRunner.scala:406)
at org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:37)
at scala.collection.Iterator$$anon$12.hasNext(Iterator.scala:440)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:409)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:409)
at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:409)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:291)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$2.apply(SparkPlan.scala:283)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:836)
at org.apache.spark.rdd.RDD$$anonfun$mapPartitionsInternal$1$$anonfun$apply$24.apply(RDD.scala:836)
at org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:52)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:324)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:288)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:90)
at org.apache.spark.scheduler.Task.run(Task.scala:121)
at org.apache.spark.executor.Executor$TaskRunner$$anonfun$10.apply(Executor.scala:408)
at org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1360)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:414)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
... 1 more
【问题讨论】：
标签： apache-spark pyspark scipy jupyter-notebook amazon-emr