We are trying to setup hail 0.2.72 on spark 3.1.2 version. However, we are facing error.
- java version:
OpenJDK 64-Bit Server VM, 1.8.0_242 - scala version:
2.12.10 - py4j:
0.10.9 - Python:
3.7.10
Stacktrace
Py4JJavaError: An error occurred while calling o126.exists.
: java.lang.NoClassDefFoundError: com/amazonaws/AmazonClientException
at java.lang.Class.forName0(Native Method)
at java.lang.Class.forName(Class.java:348)
at org.apache.hadoop.conf.Configuration.getClassByNameOrNull(Configuration.java:2532)
at org.apache.hadoop.conf.Configuration.getClassByName(Configuration.java:2497)
at org.apache.hadoop.conf.Configuration.getClass(Configuration.java:2593)
at org.apache.hadoop.fs.FileSystem.getFileSystemClass(FileSystem.java:3269)
at org.apache.hadoop.fs.FileSystem.createFileSystem(FileSystem.java:3301)
at org.apache.hadoop.fs.FileSystem.access$200(FileSystem.java:124)
at org.apache.hadoop.fs.FileSystem$Cache.getInternal(FileSystem.java:3352)
at org.apache.hadoop.fs.FileSystem$Cache.get(FileSystem.java:3320)
at org.apache.hadoop.fs.FileSystem.get(FileSystem.java:479)
at org.apache.hadoop.fs.Path.getFileSystem(Path.java:361)
at is.hail.io.fs.HadoopFS.fileStatus(HadoopFS.scala:164)
at is.hail.io.fs.FS.exists(FS.scala:183)
at is.hail.io.fs.FS.exists$(FS.scala:181)
at is.hail.io.fs.HadoopFS.exists(HadoopFS.scala:70)
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: java.lang.ClassNotFoundException: com.amazonaws.AmazonClientException
at java.net.URLClassLoader.findClass(URLClassLoader.java:382)
at java.lang.ClassLoader.loadClass(ClassLoader.java:419)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:352)
at java.lang.ClassLoader.loadClass(ClassLoader.java:352)
... 27 more
During handling of the above exception, another exception occurred:
Py4JJavaError Traceback (most recent call last)
/bmrn/apps/hail/0.2.72-spark-3.1.2/python/hail-0.2.72-py3-none-any.egg/hail/backend/py4j_backend.py in deco(*args, **kwargs)
15 try:
---> 16 return f(*args, **kwargs)
17 except py4j.protocol.Py4JJavaError as e:
/bmrn/apps/python/miniconda/64/3.7/envs/piranha_0.2.0_20210812/lib/python3.7/site-packages/py4j/protocol.py in get_return_value(answer, gateway_client, target_id, name)
327 "An error occurred while calling {0}{1}{2}.\n".
--> 328 format(target_id, ".", name), value)
329 else:
Py4JJavaError: An error occurred while calling z:is.hail.backend.spark.SparkBackend.apply.
: java.lang.IllegalArgumentException: requirement failed
at scala.Predef$.require(Predef.scala:268)
at is.hail.backend.spark.SparkBackend$.apply(SparkBackend.scala:218)
at is.hail.backend.spark.SparkBackend.apply(SparkBackend.scala)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at py4j.reflection.MethodInvoker.invoke(MethodInvoker.java:244)
at py4j.reflection.ReflectionEngine.invoke(ReflectionEngine.java:357)
at py4j.Gateway.invoke(Gateway.java:282)
at py4j.commands.AbstractCommand.invokeMethod(AbstractCommand.java:132)
at py4j.commands.CallCommand.execute(CallCommand.java:79)
at py4j.GatewayConnection.run(GatewayConnection.java:238)
at java.lang.Thread.run(Thread.java:748)
During handling of the above exception, another exception occurred:
Py4JJavaError Traceback (most recent call last)
/bmrn/apps/hail/0.2.72-spark-3.1.2/python/hail-0.2.72-py3-none-any.egg/hail/backend/py4j_backend.py in deco(*args, **kwargs)
15 try:
---> 16 return f(*args, **kwargs)
17 except py4j.protocol.Py4JJavaError as e:
/bmrn/apps/python/miniconda/64/3.7/envs/piranha_0.2.0_20210812/lib/python3.7/site-packages/py4j/protocol.py in get_return_value(answer, gateway_client, target_id, name)
327 "An error occurred while calling {0}{1}{2}.\n".
--> 328 format(target_id, ".", name), value)
329 else:
Py4JJavaError: An error occurred while calling z:is.hail.backend.spark.SparkBackend.apply.
: java.lang.IllegalArgumentException: requirement failed
at scala.Predef$.require(Predef.scala:268)
at is.hail.backend.spark.SparkBackend$.apply(SparkBackend.scala:218)
at is.hail.backend.spark.SparkBackend.apply(SparkBackend.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:748)
During handling of the above exception, another exception occurred: