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Posted to issues@spark.apache.org by "Sylvain Zimmer (JIRA)" <ji...@apache.org> on 2016/07/26 19:32:20 UTC
[jira] [Created] (SPARK-16740) joins.LongToUnsafeRowMap crashes
with NegativeArraySizeException
Sylvain Zimmer created SPARK-16740:
--------------------------------------
Summary: joins.LongToUnsafeRowMap crashes with NegativeArraySizeException
Key: SPARK-16740
URL: https://issues.apache.org/jira/browse/SPARK-16740
Project: Spark
Issue Type: Bug
Components: PySpark, Spark Core, SQL
Affects Versions: 2.0.0
Reporter: Sylvain Zimmer
Hello,
Here is a crash in Spark SQL joins, with a minimal reproducible test case. Interestingly, it only seems to happen when reading Parquet data (I added a {{crash = True}} variable to show it)
This is an {{left_outer}} example, but it also crashes with a regular {{inner}} join.
{code}
import os
from pyspark import SparkContext
from pyspark.sql import types as SparkTypes
from pyspark.sql import SQLContext
sc = SparkContext()
sqlc = SQLContext(sc)
schema1 = SparkTypes.StructType([
SparkTypes.StructField("id1", SparkTypes.LongType(), nullable=True)
])
schema2 = SparkTypes.StructType([
SparkTypes.StructField("id2", SparkTypes.LongType(), nullable=True)
])
# Valid Long values (-9223372036854775808 < -5543241376386463808 , 4661454128115150227 < 9223372036854775807)
data1 = [(4661454128115150227,), (-5543241376386463808,)]
data2 = [(650460285, )]
df1 = sqlc.createDataFrame(sc.parallelize(data1), schema1)
df2 = sqlc.createDataFrame(sc.parallelize(data2), schema2)
crash = True
if crash:
os.system("rm -rf /tmp/sparkbug")
df1.write.parquet("/tmp/sparkbug/vertex")
df2.write.parquet("/tmp/sparkbug/edge")
df1 = sqlc.read.load("/tmp/sparkbug/vertex")
df2 = sqlc.read.load("/tmp/sparkbug/edge")
result_df = df2.join(df1, on=(df1.id1 == df2.id2), how="left_outer")
# Should print [Row(id2=650460285, id1=None)]
print result_df.collect()
{code}
When ran with {{spark-submit}}, the final {{collect()}} call crashes with this:
{code}
py4j.protocol.Py4JJavaError: An error occurred while calling o61.collectToPython.
: org.apache.spark.SparkException: Exception thrown in awaitResult:
at org.apache.spark.util.ThreadUtils$.awaitResult(ThreadUtils.scala:194)
at org.apache.spark.sql.execution.exchange.BroadcastExchangeExec.doExecuteBroadcast(BroadcastExchangeExec.scala:120)
at org.apache.spark.sql.execution.InputAdapter.doExecuteBroadcast(WholeStageCodegenExec.scala:229)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$executeBroadcast$1.apply(SparkPlan.scala:125)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$executeBroadcast$1.apply(SparkPlan.scala:125)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$executeQuery$1.apply(SparkPlan.scala:136)
at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151)
at org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133)
at org.apache.spark.sql.execution.SparkPlan.executeBroadcast(SparkPlan.scala:124)
at org.apache.spark.sql.execution.joins.BroadcastHashJoinExec.prepareBroadcast(BroadcastHashJoinExec.scala:98)
at org.apache.spark.sql.execution.joins.BroadcastHashJoinExec.codegenOuter(BroadcastHashJoinExec.scala:242)
at org.apache.spark.sql.execution.joins.BroadcastHashJoinExec.doConsume(BroadcastHashJoinExec.scala:83)
at org.apache.spark.sql.execution.CodegenSupport$class.consume(WholeStageCodegenExec.scala:153)
at org.apache.spark.sql.execution.BatchedDataSourceScanExec.consume(ExistingRDD.scala:225)
at org.apache.spark.sql.execution.BatchedDataSourceScanExec.doProduce(ExistingRDD.scala:328)
at org.apache.spark.sql.execution.CodegenSupport$$anonfun$produce$1.apply(WholeStageCodegenExec.scala:83)
at org.apache.spark.sql.execution.CodegenSupport$$anonfun$produce$1.apply(WholeStageCodegenExec.scala:78)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$executeQuery$1.apply(SparkPlan.scala:136)
at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151)
at org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133)
at org.apache.spark.sql.execution.CodegenSupport$class.produce(WholeStageCodegenExec.scala:78)
at org.apache.spark.sql.execution.BatchedDataSourceScanExec.produce(ExistingRDD.scala:225)
at org.apache.spark.sql.execution.joins.BroadcastHashJoinExec.doProduce(BroadcastHashJoinExec.scala:77)
at org.apache.spark.sql.execution.CodegenSupport$$anonfun$produce$1.apply(WholeStageCodegenExec.scala:83)
at org.apache.spark.sql.execution.CodegenSupport$$anonfun$produce$1.apply(WholeStageCodegenExec.scala:78)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$executeQuery$1.apply(SparkPlan.scala:136)
at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151)
at org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133)
at org.apache.spark.sql.execution.CodegenSupport$class.produce(WholeStageCodegenExec.scala:78)
at org.apache.spark.sql.execution.joins.BroadcastHashJoinExec.produce(BroadcastHashJoinExec.scala:38)
at org.apache.spark.sql.execution.WholeStageCodegenExec.doCodeGen(WholeStageCodegenExec.scala:309)
at org.apache.spark.sql.execution.WholeStageCodegenExec.doExecute(WholeStageCodegenExec.scala:347)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$execute$1.apply(SparkPlan.scala:115)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$execute$1.apply(SparkPlan.scala:115)
at org.apache.spark.sql.execution.SparkPlan$$anonfun$executeQuery$1.apply(SparkPlan.scala:136)
at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151)
at org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133)
at org.apache.spark.sql.execution.SparkPlan.execute(SparkPlan.scala:114)
at org.apache.spark.sql.execution.QueryExecution.toRdd$lzycompute(QueryExecution.scala:86)
at org.apache.spark.sql.execution.QueryExecution.toRdd(QueryExecution.scala:86)
at org.apache.spark.sql.Dataset.javaToPython(Dataset.scala:2507)
at org.apache.spark.sql.Dataset$$anonfun$collectToPython$1.apply$mcI$sp(Dataset.scala:2513)
at org.apache.spark.sql.Dataset$$anonfun$collectToPython$1.apply(Dataset.scala:2513)
at org.apache.spark.sql.Dataset$$anonfun$collectToPython$1.apply(Dataset.scala:2513)
at org.apache.spark.sql.execution.SQLExecution$.withNewExecutionId(SQLExecution.scala:57)
at org.apache.spark.sql.Dataset.withNewExecutionId(Dataset.scala:2532)
at org.apache.spark.sql.Dataset.collectToPython(Dataset.scala:2512)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at py4j.reflection.MethodInvoker.invoke(MethodInvoker.java:237)
at py4j.reflection.ReflectionEngine.invoke(ReflectionEngine.java:357)
at py4j.Gateway.invoke(Gateway.java:280)
at py4j.commands.AbstractCommand.invokeMethod(AbstractCommand.java:128)
at py4j.commands.CallCommand.execute(CallCommand.java:79)
at py4j.GatewayConnection.run(GatewayConnection.java:211)
at java.lang.Thread.run(Thread.java:745)
Caused by: java.lang.NegativeArraySizeException
at org.apache.spark.sql.execution.joins.LongToUnsafeRowMap.optimize(HashedRelation.scala:619)
at org.apache.spark.sql.execution.joins.LongHashedRelation$.apply(HashedRelation.scala:806)
at org.apache.spark.sql.execution.joins.HashedRelation$.apply(HashedRelation.scala:105)
at org.apache.spark.sql.execution.joins.HashedRelationBroadcastMode.transform(HashedRelation.scala:816)
at org.apache.spark.sql.execution.joins.HashedRelationBroadcastMode.transform(HashedRelation.scala:812)
at org.apache.spark.sql.execution.exchange.BroadcastExchangeExec$$anonfun$relationFuture$1$$anonfun$apply$1.apply(BroadcastExchangeExec.scala:90)
at org.apache.spark.sql.execution.exchange.BroadcastExchangeExec$$anonfun$relationFuture$1$$anonfun$apply$1.apply(BroadcastExchangeExec.scala:72)
at org.apache.spark.sql.execution.SQLExecution$.withExecutionId(SQLExecution.scala:94)
at org.apache.spark.sql.execution.exchange.BroadcastExchangeExec$$anonfun$relationFuture$1.apply(BroadcastExchangeExec.scala:72)
at org.apache.spark.sql.execution.exchange.BroadcastExchangeExec$$anonfun$relationFuture$1.apply(BroadcastExchangeExec.scala:72)
at scala.concurrent.impl.Future$PromiseCompletingRunnable.liftedTree1$1(Future.scala:24)
at scala.concurrent.impl.Future$PromiseCompletingRunnable.run(Future.scala:24)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
... 1 more
{code}
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