---------------------------------------------------------------------------
Py4JJavaError Traceback (most recent call last)
<ipython-input-7-61230b5af245> in <module>
----> 1 numbers.filter(lambda x: x % 2 == 0).collect()
/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/rdd.py in collect(self)
812 """
813 with SCCallSiteSync(self.context) as css:
--> 814 sock_info = self.ctx._jvm.PythonRDD.collectAndServe(self._jrdd.rdd())
815 return list(_load_from_socket(sock_info, self._jrdd_deserializer))
816
/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/py4j/java_gateway.py in __call__(self, *args)
1255 answer = self.gateway_client.send_command(command)
1256 return_value = get_return_value(
-> 1257 answer, self.gateway_client, self.target_id, self.name)
1258
1259 for temp_arg in temp_args:
/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/sql/utils.py in deco(*a, **kw)
61 def deco(*a, **kw):
62 try:
---> 63 return f(*a, **kw)
64 except py4j.protocol.Py4JJavaError as e:
65 s = e.java_exception.toString()
/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/py4j/protocol.py in get_return_value(answer, gateway_client, target_id, name)
326 raise Py4JJavaError(
327 "An error occurred while calling {0}{1}{2}.\n".
--> 328 format(target_id, ".", name), value)
329 else:
330 raise Py4JError(
Py4JJavaError: An error occurred while calling z:org.apache.spark.api.python.PythonRDD.collectAndServe.
: org.apache.spark.SparkException: Job aborted due to stage failure: Task 1 in stage 1.0 failed 1 times, most recent failure: Lost task 1.0 in stage 1.0 (TID 3, localhost, executor driver): org.apache.spark.SparkException:
Error from python worker:
Traceback (most recent call last):
File "/opt/miniconda3/lib/python3.8/runpy.py", line 185, in _run_module_as_main
mod_name, mod_spec, code = _get_module_details(mod_name, _Error)
File "/opt/miniconda3/lib/python3.8/runpy.py", line 111, in _get_module_details
__import__(pkg_name)
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/pyspark.zip/pyspark/__init__.py", line 46, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/pyspark.zip/pyspark/context.py", line 31, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/pyspark.zip/pyspark/accumulators.py", line 97, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/pyspark.zip/pyspark/cloudpickle.py", line 146, in <module>
File "/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/pyspark.zip/pyspark/cloudpickle.py", line 127, in _make_cell_set_template_code
TypeError: an integer is required (got type bytes)
PYTHONPATH was:
/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/pyspark.zip:/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/py4j-0.10.7-src.zip:/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/jars/spark-core_2.11-2.3.2.jar
java.io.EOFException
at java.io.DataInputStream.readInt(DataInputStream.java:392)
at org.apache.spark.api.python.PythonWorkerFactory.startDaemon(PythonWorkerFactory.scala:177)
at org.apache.spark.api.python.PythonWorkerFactory.createThroughDaemon(PythonWorkerFactory.scala:100)
at org.apache.spark.api.python.PythonWorkerFactory.create(PythonWorkerFactory.scala:74)
at org.apache.spark.SparkEnv.createPythonWorker(SparkEnv.scala:117)
at org.apache.spark.api.python.BasePythonRunner.compute(PythonRunner.scala:86)
at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:67)
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$TaskRunner.run(Executor.scala:345)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
at java.util.concurrent.ThreadPoolExecutor$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$$failJobAndIndependentStages(DAGScheduler.scala:1651)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1639)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1638)
at scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59)
at scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:48)
at org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:1638)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:831)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:831)
at scala.Option.foreach(Option.scala:257)
at org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:831)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:1872)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1821)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1810)
at org.apache.spark.util.EventLoop$$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.SparkContext.runJob(SparkContext.scala:2099)
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$.withScope(RDDOperationScope.scala:112)
at org.apache.spark.rdd.RDD.withScope(RDD.scala:363)
at org.apache.spark.rdd.RDD.collect(RDD.scala:944)
at org.apache.spark.api.python.PythonRDD$.collectAndServe(PythonRDD.scala:165)
at org.apache.spark.api.python.PythonRDD.collectAndServe(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: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:745)
Caused by: org.apache.spark.SparkException:
Error from python worker:
Traceback (most recent call last):
File "/opt/miniconda3/lib/python3.8/runpy.py", line 185, in _run_module_as_main
mod_name, mod_spec, code = _get_module_details(mod_name, _Error)
File "/opt/miniconda3/lib/python3.8/runpy.py", line 111, in _get_module_details
__import__(pkg_name)
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/pyspark.zip/pyspark/__init__.py", line 46, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/pyspark.zip/pyspark/context.py", line 31, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/pyspark.zip/pyspark/accumulators.py", line 97, in <module>
File "<frozen importlib._bootstrap>", line 991, in _find_and_load
File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap>", line 618, in _load_backward_compatible
File "<frozen zipimport>", line 259, in load_module
File "/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/pyspark.zip/pyspark/cloudpickle.py", line 146, in <module>
File "/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/pyspark.zip/pyspark/cloudpickle.py", line 127, in _make_cell_set_template_code
TypeError: an integer is required (got type bytes)
PYTHONPATH was:
/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/pyspark.zip:/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/python/lib/py4j-0.10.7-src.zip:/opt/miniconda3/envs/mmtf-workshop-2018/lib/python3.7/site-packages/pyspark/jars/spark-core_2.11-2.3.2.jar
java.io.EOFException
at java.io.DataInputStream.readInt(DataInputStream.java:392)
at org.apache.spark.api.python.PythonWorkerFactory.startDaemon(PythonWorkerFactory.scala:177)
at org.apache.spark.api.python.PythonWorkerFactory.createThroughDaemon(PythonWorkerFactory.scala:100)
at org.apache.spark.api.python.PythonWorkerFactory.create(PythonWorkerFactory.scala:74)
at org.apache.spark.SparkEnv.createPythonWorker(SparkEnv.scala:117)
at org.apache.spark.api.python.BasePythonRunner.compute(PythonRunner.scala:86)
at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:67)
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$TaskRunner.run(Executor.scala:345)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
... 1 more