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author | Sean Zhong <seanzhong@databricks.com> | 2016-09-12 11:30:06 -0700 |
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committer | Josh Rosen <joshrosen@databricks.com> | 2016-09-12 11:30:06 -0700 |
commit | 1742c3ab86d75ce3d352f7cddff65e62fb7c8dd4 (patch) | |
tree | cdb3dea3db732a647977adc1cb9ddc86b8121840 /core/src/test | |
parent | 8087ecf8daad1587d0ce9040991b14320628a65e (diff) | |
download | spark-1742c3ab86d75ce3d352f7cddff65e62fb7c8dd4.tar.gz spark-1742c3ab86d75ce3d352f7cddff65e62fb7c8dd4.tar.bz2 spark-1742c3ab86d75ce3d352f7cddff65e62fb7c8dd4.zip |
[SPARK-17503][CORE] Fix memory leak in Memory store when unable to cache the whole RDD in memory
## What changes were proposed in this pull request?
MemoryStore may throw OutOfMemoryError when trying to cache a super big RDD that cannot fit in memory.
```
scala> sc.parallelize(1 to 1000000000, 100).map(x => new Array[Long](1000)).cache().count()
java.lang.OutOfMemoryError: Java heap space
at $line14.$read$$iw$$iw$$iw$$iw$$iw$$iw$$iw$$iw$$anonfun$1.apply(<console>:24)
at $line14.$read$$iw$$iw$$iw$$iw$$iw$$iw$$iw$$iw$$anonfun$1.apply(<console>:23)
at scala.collection.Iterator$$anon$11.next(Iterator.scala:409)
at scala.collection.Iterator$JoinIterator.next(Iterator.scala:232)
at org.apache.spark.storage.memory.PartiallyUnrolledIterator.next(MemoryStore.scala:683)
at org.apache.spark.InterruptibleIterator.next(InterruptibleIterator.scala:43)
at org.apache.spark.util.Utils$.getIteratorSize(Utils.scala:1684)
at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1134)
at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1134)
at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1915)
at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1915)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:70)
at org.apache.spark.scheduler.Task.run(Task.scala:86)
at org.apache.spark.executor.Executor$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)
```
Spark MemoryStore uses SizeTrackingVector as a temporary unrolling buffer to store all input values that it has read so far before transferring the values to storage memory cache. The problem is that when the input RDD is too big for caching in memory, the temporary unrolling memory SizeTrackingVector is not garbage collected in time. As SizeTrackingVector can occupy all available storage memory, it may cause the executor JVM to run out of memory quickly.
More info can be found at https://issues.apache.org/jira/browse/SPARK-17503
## How was this patch tested?
Unit test and manual test.
### Before change
Heap memory consumption
<img width="702" alt="screen shot 2016-09-12 at 4 16 15 pm" src="https://cloud.githubusercontent.com/assets/2595532/18429524/60d73a26-7906-11e6-9768-6f286f5c58c8.png">
Heap dump
<img width="1402" alt="screen shot 2016-09-12 at 4 34 19 pm" src="https://cloud.githubusercontent.com/assets/2595532/18429577/cbc1ef20-7906-11e6-847b-b5903f450b3b.png">
### After change
Heap memory consumption
<img width="706" alt="screen shot 2016-09-12 at 4 29 10 pm" src="https://cloud.githubusercontent.com/assets/2595532/18429503/4abe9342-7906-11e6-844a-b2f815072624.png">
Author: Sean Zhong <seanzhong@databricks.com>
Closes #15056 from clockfly/memory_store_leak.
Diffstat (limited to 'core/src/test')
-rw-r--r-- | core/src/test/scala/org/apache/spark/storage/PartiallyUnrolledIteratorSuite.scala | 61 |
1 files changed, 61 insertions, 0 deletions
diff --git a/core/src/test/scala/org/apache/spark/storage/PartiallyUnrolledIteratorSuite.scala b/core/src/test/scala/org/apache/spark/storage/PartiallyUnrolledIteratorSuite.scala new file mode 100644 index 0000000000..02c2331dc3 --- /dev/null +++ b/core/src/test/scala/org/apache/spark/storage/PartiallyUnrolledIteratorSuite.scala @@ -0,0 +1,61 @@ +/* + * Licensed to the Apache Software Foundation (ASF) under one or more + * contributor license agreements. See the NOTICE file distributed with + * this work for additional information regarding copyright ownership. + * The ASF licenses this file to You under the Apache License, Version 2.0 + * (the "License"); you may not use this file except in compliance with + * the License. You may obtain a copy of the License at + * + * http://www.apache.org/licenses/LICENSE-2.0 + * + * Unless required by applicable law or agreed to in writing, software + * distributed under the License is distributed on an "AS IS" BASIS, + * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. + * See the License for the specific language governing permissions and + * limitations under the License. + */ + +package org.apache.spark.storage + +import org.mockito.Matchers +import org.mockito.Mockito._ +import org.scalatest.mock.MockitoSugar + +import org.apache.spark.SparkFunSuite +import org.apache.spark.memory.MemoryMode.ON_HEAP +import org.apache.spark.storage.memory.{MemoryStore, PartiallyUnrolledIterator} + +class PartiallyUnrolledIteratorSuite extends SparkFunSuite with MockitoSugar { + test("join two iterators") { + val unrollSize = 1000 + val unroll = (0 until unrollSize).iterator + val restSize = 500 + val rest = (unrollSize until restSize + unrollSize).iterator + + val memoryStore = mock[MemoryStore] + val joinIterator = new PartiallyUnrolledIterator(memoryStore, unrollSize, unroll, rest) + + // Firstly iterate over unrolling memory iterator + (0 until unrollSize).foreach { value => + assert(joinIterator.hasNext) + assert(joinIterator.hasNext) + assert(joinIterator.next() == value) + } + + joinIterator.hasNext + joinIterator.hasNext + verify(memoryStore, times(1)) + .releaseUnrollMemoryForThisTask(Matchers.eq(ON_HEAP), Matchers.eq(unrollSize.toLong)) + + // Secondly, iterate over rest iterator + (unrollSize until unrollSize + restSize).foreach { value => + assert(joinIterator.hasNext) + assert(joinIterator.hasNext) + assert(joinIterator.next() == value) + } + + joinIterator.close() + // MemoryMode.releaseUnrollMemoryForThisTask is called only once + verifyNoMoreInteractions(memoryStore) + } +} |