[
https://issues.apache.org/jira/browse/SPARK-1577?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel
]
Joseph E. Gonzalez updated SPARK-1577:
--------------------------------------
Description:
If Kryo is enabled by setting:
{code}
SPARK_JAVA_OPTS+="-Dspark.serializer=org.apache.spark.serializer.KryoSerializer
"
SPARK_JAVA_OPTS+="-Dspark.kryo.registrator=org.apache.spark.graphx.GraphKryoRegistrator
"
{code}
in conf/spark_env.conf and running the following block of code in the shell:
{code}
import org.apache.spark.graphx._
import org.apache.spark.graphx.lib._
import org.apache.spark.rdd.RDD
val vertexArray = Array(
(1L, ("Alice", 28)),
(2L, ("Bob", 27)),
(3L, ("Charlie", 65)),
(4L, ("David", 42)),
(5L, ("Ed", 55)),
(6L, ("Fran", 50))
)
val edgeArray = Array(
Edge(2L, 1L, 7),
Edge(2L, 4L, 2),
Edge(3L, 2L, 4),
Edge(3L, 6L, 3),
Edge(4L, 1L, 1),
Edge(5L, 2L, 2),
Edge(5L, 3L, 8),
Edge(5L, 6L, 3)
)
val vertexRDD: RDD[(Long, (String, Int))] = sc.parallelize(vertexArray)
val edgeRDD: RDD[Edge[Int]] = sc.parallelize(edgeArray)
val graph: Graph[(String, Int), Int] = Graph(vertexRDD, edgeRDD)
// Define a class to more clearly model the user property
case class User(name: String, age: Int, inDeg: Int, outDeg: Int)
// Transform the graph
val userGraph = graph.mapVertices{ case (id, (name, age)) => User(name, age, 0,
0) }
{code}
The following block of code works:
{code}
userGraph.vertices.count
{code}
and the following block of code generates a Kryo error:
{code}
userGraph.vertices.collect
{code}
There error:
{code}
java.lang.StackOverflowError
at
sun.reflect.UnsafeFieldAccessorImpl.ensureObj(UnsafeFieldAccessorImpl.java:54)
at
sun.reflect.UnsafeQualifiedObjectFieldAccessorImpl.get(UnsafeQualifiedObjectFieldAccessorImpl.java:38)
at java.lang.reflect.Field.get(Field.java:379)
at
com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.write(FieldSerializer.java:552)
at
com.esotericsoftware.kryo.serializers.FieldSerializer.write(FieldSerializer.java:213)
at com.esotericsoftware.kryo.Kryo.writeObject(Kryo.java:501)
at
com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.write(FieldSerializer.java:564)
at
com.esotericsoftware.kryo.serializers.FieldSerializer.write(FieldSerializer.java:213)
at com.esotericsoftware.kryo.Kryo.writeObject(Kryo.java:501)
at
com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.write(FieldSerializer.java:564)
at
com.esotericsoftware.kryo.serializers.FieldSerializer.write(FieldSerializer.java:213)
at com.esotericsoftware.kryo.Kryo.writeObject(Kryo.java:501)
at
com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.write(FieldSerializer.java:564)
at
com.esotericsoftware.kryo.serializers.FieldSerializer.write(FieldSerializer.java:213)
at com.esotericsoftware.kryo.Kryo.writeObject(Kryo.java:501)
{code}
was:
If Kryo is enabled by setting:
{{{quote}
SPARK_JAVA_OPTS+="-Dspark.serializer=org.apache.spark.serializer.KryoSerializer
"
SPARK_JAVA_OPTS+="-Dspark.kryo.registrator=org.apache.spark.graphx.GraphKryoRegistrator
"
{quote}}}
in conf/spark_env.conf and running the following block of code in the shell:
{code}
import org.apache.spark.graphx._
import org.apache.spark.graphx.lib._
import org.apache.spark.rdd.RDD
val vertexArray = Array(
(1L, ("Alice", 28)),
(2L, ("Bob", 27)),
(3L, ("Charlie", 65)),
(4L, ("David", 42)),
(5L, ("Ed", 55)),
(6L, ("Fran", 50))
)
val edgeArray = Array(
Edge(2L, 1L, 7),
Edge(2L, 4L, 2),
Edge(3L, 2L, 4),
Edge(3L, 6L, 3),
Edge(4L, 1L, 1),
Edge(5L, 2L, 2),
Edge(5L, 3L, 8),
Edge(5L, 6L, 3)
)
val vertexRDD: RDD[(Long, (String, Int))] = sc.parallelize(vertexArray)
val edgeRDD: RDD[Edge[Int]] = sc.parallelize(edgeArray)
val graph: Graph[(String, Int), Int] = Graph(vertexRDD, edgeRDD)
// Define a class to more clearly model the user property
case class User(name: String, age: Int, inDeg: Int, outDeg: Int)
// Transform the graph
val userGraph = graph.mapVertices{ case (id, (name, age)) => User(name, age, 0,
0) }
{code}
The following block of code works:
{code}
userGraph.vertices.count
{code}
and the following block of code generates a Kryo error:
{code}
userGraph.vertices.collect
{code}
There error:
{code}
java.lang.StackOverflowError
at
sun.reflect.UnsafeFieldAccessorImpl.ensureObj(UnsafeFieldAccessorImpl.java:54)
at
sun.reflect.UnsafeQualifiedObjectFieldAccessorImpl.get(UnsafeQualifiedObjectFieldAccessorImpl.java:38)
at java.lang.reflect.Field.get(Field.java:379)
at
com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.write(FieldSerializer.java:552)
at
com.esotericsoftware.kryo.serializers.FieldSerializer.write(FieldSerializer.java:213)
at com.esotericsoftware.kryo.Kryo.writeObject(Kryo.java:501)
at
com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.write(FieldSerializer.java:564)
at
com.esotericsoftware.kryo.serializers.FieldSerializer.write(FieldSerializer.java:213)
at com.esotericsoftware.kryo.Kryo.writeObject(Kryo.java:501)
at
com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.write(FieldSerializer.java:564)
at
com.esotericsoftware.kryo.serializers.FieldSerializer.write(FieldSerializer.java:213)
at com.esotericsoftware.kryo.Kryo.writeObject(Kryo.java:501)
at
com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.write(FieldSerializer.java:564)
at
com.esotericsoftware.kryo.serializers.FieldSerializer.write(FieldSerializer.java:213)
at com.esotericsoftware.kryo.Kryo.writeObject(Kryo.java:501)
{code}
> GraphX mapVertices with KryoSerialization
> -----------------------------------------
>
> Key: SPARK-1577
> URL: https://issues.apache.org/jira/browse/SPARK-1577
> Project: Spark
> Issue Type: Bug
> Components: GraphX
> Reporter: Joseph E. Gonzalez
>
> If Kryo is enabled by setting:
> {code}
> SPARK_JAVA_OPTS+="-Dspark.serializer=org.apache.spark.serializer.KryoSerializer
> "
> SPARK_JAVA_OPTS+="-Dspark.kryo.registrator=org.apache.spark.graphx.GraphKryoRegistrator
> "
> {code}
> in conf/spark_env.conf and running the following block of code in the shell:
> {code}
> import org.apache.spark.graphx._
> import org.apache.spark.graphx.lib._
> import org.apache.spark.rdd.RDD
> val vertexArray = Array(
> (1L, ("Alice", 28)),
> (2L, ("Bob", 27)),
> (3L, ("Charlie", 65)),
> (4L, ("David", 42)),
> (5L, ("Ed", 55)),
> (6L, ("Fran", 50))
> )
> val edgeArray = Array(
> Edge(2L, 1L, 7),
> Edge(2L, 4L, 2),
> Edge(3L, 2L, 4),
> Edge(3L, 6L, 3),
> Edge(4L, 1L, 1),
> Edge(5L, 2L, 2),
> Edge(5L, 3L, 8),
> Edge(5L, 6L, 3)
> )
> val vertexRDD: RDD[(Long, (String, Int))] = sc.parallelize(vertexArray)
> val edgeRDD: RDD[Edge[Int]] = sc.parallelize(edgeArray)
> val graph: Graph[(String, Int), Int] = Graph(vertexRDD, edgeRDD)
> // Define a class to more clearly model the user property
> case class User(name: String, age: Int, inDeg: Int, outDeg: Int)
> // Transform the graph
> val userGraph = graph.mapVertices{ case (id, (name, age)) => User(name, age,
> 0, 0) }
> {code}
> The following block of code works:
> {code}
> userGraph.vertices.count
> {code}
> and the following block of code generates a Kryo error:
> {code}
> userGraph.vertices.collect
> {code}
> There error:
> {code}
> java.lang.StackOverflowError
> at
> sun.reflect.UnsafeFieldAccessorImpl.ensureObj(UnsafeFieldAccessorImpl.java:54)
> at
> sun.reflect.UnsafeQualifiedObjectFieldAccessorImpl.get(UnsafeQualifiedObjectFieldAccessorImpl.java:38)
> at java.lang.reflect.Field.get(Field.java:379)
> at
> com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.write(FieldSerializer.java:552)
> at
> com.esotericsoftware.kryo.serializers.FieldSerializer.write(FieldSerializer.java:213)
> at com.esotericsoftware.kryo.Kryo.writeObject(Kryo.java:501)
> at
> com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.write(FieldSerializer.java:564)
> at
> com.esotericsoftware.kryo.serializers.FieldSerializer.write(FieldSerializer.java:213)
> at com.esotericsoftware.kryo.Kryo.writeObject(Kryo.java:501)
> at
> com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.write(FieldSerializer.java:564)
> at
> com.esotericsoftware.kryo.serializers.FieldSerializer.write(FieldSerializer.java:213)
> at com.esotericsoftware.kryo.Kryo.writeObject(Kryo.java:501)
> at
> com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.write(FieldSerializer.java:564)
> at
> com.esotericsoftware.kryo.serializers.FieldSerializer.write(FieldSerializer.java:213)
> at com.esotericsoftware.kryo.Kryo.writeObject(Kryo.java:501)
> {code}
>
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