Merge pull request #3 from apache/master

merge lastest spark

Author: pzzs

assembly/pom.xml

@@ -20,7 +20,7 @@
   <modelVersion>4.0.0</modelVersion>
   <parent>
     <groupId>org.apache.spark</groupId>
-    <artifactId>spark-parent</artifactId>
+    <artifactId>spark-parent_2.10</artifactId>
     <version>1.3.0-SNAPSHOT</version>
     <relativePath>../pom.xml</relativePath>
   </parent>

bagel/pom.xml

@@ -20,7 +20,7 @@
   <modelVersion>4.0.0</modelVersion>
   <parent>
     <groupId>org.apache.spark</groupId>
-    <artifactId>spark-parent</artifactId>
+    <artifactId>spark-parent_2.10</artifactId>
     <version>1.3.0-SNAPSHOT</version>
     <relativePath>../pom.xml</relativePath>
   </parent>

core/pom.xml

@@ -20,7 +20,7 @@
   <modelVersion>4.0.0</modelVersion>
   <parent>
     <groupId>org.apache.spark</groupId>
-    <artifactId>spark-parent</artifactId>
+    <artifactId>spark-parent_2.10</artifactId>
     <version>1.3.0-SNAPSHOT</version>
     <relativePath>../pom.xml</relativePath>
   </parent>
@@ -319,6 +319,12 @@
       <artifactId>selenium-java</artifactId>
       <scope>test</scope>
     </dependency>
+    <!-- Added for selenium: -->
+    <dependency>
+      <groupId>xml-apis</groupId>
+      <artifactId>xml-apis</artifactId>
+      <scope>test</scope>
+    </dependency>
     <dependency>
       <groupId>org.mockito</groupId>
       <artifactId>mockito-all</artifactId>

core/src/main/scala/org/apache/spark/api/python/PythonRDD.scala

@@ -19,26 +19,27 @@ package org.apache.spark.api.python
 
 import java.io._
 import java.net._
-import java.util.{List => JList, ArrayList => JArrayList, Map => JMap, UUID, Collections}
-
-import org.apache.spark.input.PortableDataStream
+import java.util.{Collections, ArrayList => JArrayList, List => JList, Map => JMap}
 
 import scala.collection.JavaConversions._
 import scala.collection.mutable
 import scala.language.existentials
 
 import com.google.common.base.Charsets.UTF_8
-
 import org.apache.hadoop.conf.Configuration
 import org.apache.hadoop.io.compress.CompressionCodec
-import org.apache.hadoop.mapred.{InputFormat, OutputFormat, JobConf}
+import org.apache.hadoop.mapred.{InputFormat, JobConf, OutputFormat}
 import org.apache.hadoop.mapreduce.{InputFormat => NewInputFormat, OutputFormat => NewOutputFormat}
+
 import org.apache.spark._
-import org.apache.spark.api.java.{JavaSparkContext, JavaPairRDD, JavaRDD}
+import org.apache.spark.api.java.{JavaPairRDD, JavaRDD, JavaSparkContext}
 import org.apache.spark.broadcast.Broadcast
+import org.apache.spark.input.PortableDataStream
 import org.apache.spark.rdd.RDD
 import org.apache.spark.util.Utils
 
+import scala.util.control.NonFatal
+
 private[spark] class PythonRDD(
     @transient parent: RDD[_],
     command: Array[Byte],
@@ -341,21 +342,33 @@ private[spark] object PythonRDD extends Logging {
   /**
    * Adapter for calling SparkContext#runJob from Python.
    *
-   * This method will return an iterator of an array that contains all elements in the RDD
+   * This method will serve an iterator of an array that contains all elements in the RDD
    * (effectively a collect()), but allows you to run on a certain subset of partitions,
    * or to enable local execution.
+   *
+   * @return the port number of a local socket which serves the data collected from this job.
    */
   def runJob(
       sc: SparkContext,
       rdd: JavaRDD[Array[Byte]],
       partitions: JArrayList[Int],
-      allowLocal: Boolean): Iterator[Array[Byte]] = {
+      allowLocal: Boolean): Int = {
     type ByteArray = Array[Byte]
     type UnrolledPartition = Array[ByteArray]
     val allPartitions: Array[UnrolledPartition] =
       sc.runJob(rdd, (x: Iterator[ByteArray]) => x.toArray, partitions, allowLocal)
     val flattenedPartition: UnrolledPartition = Array.concat(allPartitions: _*)
-    flattenedPartition.iterator
+    serveIterator(flattenedPartition.iterator,
+      s"serve RDD ${rdd.id} with partitions ${partitions.mkString(",")}")
+  }
+
+  /**
+   * A helper function to collect an RDD as an iterator, then serve it via socket.
+   *
+   * @return the port number of a local socket which serves the data collected from this job.
+   */
+  def collectAndServe[T](rdd: RDD[T]): Int = {
+    serveIterator(rdd.collect().iterator, s"serve RDD ${rdd.id}")
   }
 
   def readRDDFromFile(sc: JavaSparkContext, filename: String, parallelism: Int):
@@ -575,15 +588,44 @@ private[spark] object PythonRDD extends Logging {
     dataOut.write(bytes)
   }
 
-  def writeToFile[T](items: java.util.Iterator[T], filename: String) {
-    import scala.collection.JavaConverters._
-    writeToFile(items.asScala, filename)
-  }
+  /**
+   * Create a socket server and a background thread to serve the data in `items`,
+   *
+   * The socket server can only accept one connection, or close if no connection
+   * in 3 seconds.
+   *
+   * Once a connection comes in, it tries to serialize all the data in `items`
+   * and send them into this connection.
+   *
+   * The thread will terminate after all the data are sent or any exceptions happen.
+   */
+  private def serveIterator[T](items: Iterator[T], threadName: String): Int = {
+    val serverSocket = new ServerSocket(0, 1)
+    serverSocket.setReuseAddress(true)
+    // Close the socket if no connection in 3 seconds
+    serverSocket.setSoTimeout(3000)
+
+    new Thread(threadName) {
+      setDaemon(true)
+      override def run() {
+        try {
+          val sock = serverSocket.accept()
+          val out = new DataOutputStream(new BufferedOutputStream(sock.getOutputStream))
+          try {
+            writeIteratorToStream(items, out)
+          } finally {
+            out.close()
+          }
+        } catch {
+          case NonFatal(e) =>
+            logError(s"Error while sending iterator", e)
+        } finally {
+          serverSocket.close()
+        }
+      }
+    }.start()
 
-  def writeToFile[T](items: Iterator[T], filename: String) {
-    val file = new DataOutputStream(new FileOutputStream(filename))
-    writeIteratorToStream(items, file)
-    file.close()
+    serverSocket.getLocalPort
   }
 
   private def getMergedConf(confAsMap: java.util.HashMap[String, String],

core/src/main/scala/org/apache/spark/deploy/LocalSparkCluster.scala

@@ -59,7 +59,7 @@ class LocalSparkCluster(
     /* Start the Workers */
     for (workerNum <- 1 to numWorkers) {
       val (workerSystem, _) = Worker.startSystemAndActor(localHostname, 0, 0, coresPerWorker,
-        memoryPerWorker, masters, null, Some(workerNum))
+        memoryPerWorker, masters, null, Some(workerNum), _conf)
       workerActorSystems += workerSystem
     }
 

core/src/main/scala/org/apache/spark/deploy/master/Master.scala

@@ -96,7 +96,7 @@ private[spark] class Master(
   val webUi = new MasterWebUI(this, webUiPort)
 
   val masterPublicAddress = {
-    val envVar = System.getenv("SPARK_PUBLIC_DNS")
+    val envVar = conf.getenv("SPARK_PUBLIC_DNS")
     if (envVar != null) envVar else host
   }
 

core/src/main/scala/org/apache/spark/deploy/worker/ExecutorRunner.scala

@@ -44,6 +44,7 @@ private[spark] class ExecutorRunner(
     val workerId: String,
     val host: String,
     val webUiPort: Int,
+    val publicAddress: String,
     val sparkHome: File,
     val executorDir: File,
     val workerUrl: String,
@@ -140,7 +141,8 @@ private[spark] class ExecutorRunner(
       builder.environment.put("SPARK_LAUNCH_WITH_SCALA", "0")
 
       // Add webUI log urls
-      val baseUrl = s"http://$host:$webUiPort/logPage/?appId=$appId&executorId=$execId&logType="
+      val baseUrl =
+        s"http://$publicAddress:$webUiPort/logPage/?appId=$appId&executorId=$execId&logType="
       builder.environment.put("SPARK_LOG_URL_STDERR", s"${baseUrl}stderr")
       builder.environment.put("SPARK_LOG_URL_STDOUT", s"${baseUrl}stdout")
 

core/src/main/scala/org/apache/spark/deploy/worker/Worker.scala

@@ -121,7 +121,7 @@ private[spark] class Worker(
   val shuffleService = new StandaloneWorkerShuffleService(conf, securityMgr)
 
   val publicAddress = {
-    val envVar = System.getenv("SPARK_PUBLIC_DNS")
+    val envVar = conf.getenv("SPARK_PUBLIC_DNS")
     if (envVar != null) envVar else host
   }
   var webUi: WorkerWebUI = null
@@ -362,7 +362,8 @@ private[spark] class Worker(
             self,
             workerId,
             host,
-            webUiPort,
+            webUi.boundPort,
+            publicAddress,
             sparkHome,
             executorDir,
             akkaUrl,
@@ -538,10 +539,10 @@ private[spark] object Worker extends Logging {
       memory: Int,
       masterUrls: Array[String],
       workDir: String,
-      workerNumber: Option[Int] = None): (ActorSystem, Int) = {
+      workerNumber: Option[Int] = None,
+      conf: SparkConf = new SparkConf): (ActorSystem, Int) = {
 
     // The LocalSparkCluster runs multiple local sparkWorkerX actor systems
-    val conf = new SparkConf
     val systemName = "sparkWorker" + workerNumber.map(_.toString).getOrElse("")
     val actorName = "Worker"
     val securityMgr = new SecurityManager(conf)

core/src/main/scala/org/apache/spark/scheduler/local/LocalBackend.scala

@@ -20,6 +20,7 @@ package org.apache.spark.scheduler.local
 import java.nio.ByteBuffer
 
 import scala.concurrent.duration._
+import scala.language.postfixOps
 
 import akka.actor.{Actor, ActorRef, Props}
 

core/src/main/scala/org/apache/spark/ui/WebUI.scala

@@ -47,7 +47,7 @@ private[spark] abstract class WebUI(
   protected val handlers = ArrayBuffer[ServletContextHandler]()
   protected var serverInfo: Option[ServerInfo] = None
   protected val localHostName = Utils.localHostName()
-  protected val publicHostName = Option(System.getenv("SPARK_PUBLIC_DNS")).getOrElse(localHostName)
+  protected val publicHostName = Option(conf.getenv("SPARK_PUBLIC_DNS")).getOrElse(localHostName)
   private val className = Utils.getFormattedClassName(this)
 
   def getBasePath: String = basePath

core/src/test/scala/org/apache/spark/deploy/JsonProtocolSuite.scala

@@ -119,7 +119,7 @@ class JsonProtocolSuite extends FunSuite {
 
   def createExecutorRunner(): ExecutorRunner = {
     new ExecutorRunner("appId", 123, createAppDesc(), 4, 1234, null, "workerId", "host", 123,
-      new File("sparkHome"), new File("workDir"), "akka://worker",
+      "publicAddress", new File("sparkHome"), new File("workDir"), "akka://worker",
       new SparkConf, Seq("localDir"), ExecutorState.RUNNING)
   }
 

core/src/test/scala/org/apache/spark/deploy/LogUrlsStandaloneSuite.scala

@@ -17,35 +17,69 @@
 
 package org.apache.spark.deploy
 
+import java.net.URL
+
 import scala.collection.mutable
+import scala.io.Source
 
-import org.scalatest.{BeforeAndAfter, FunSuite}
+import org.scalatest.FunSuite
 
 import org.apache.spark.scheduler.cluster.ExecutorInfo
 import org.apache.spark.scheduler.{SparkListenerExecutorAdded, SparkListener}
-import org.apache.spark.{SparkContext, LocalSparkContext}
+import org.apache.spark.{SparkConf, SparkContext, LocalSparkContext}
 
-class LogUrlsStandaloneSuite extends FunSuite with LocalSparkContext with BeforeAndAfter {
+class LogUrlsStandaloneSuite extends FunSuite with LocalSparkContext {
 
   /** Length of time to wait while draining listener events. */
-  val WAIT_TIMEOUT_MILLIS = 10000
+  private val WAIT_TIMEOUT_MILLIS = 10000
 
-  before {
+  test("verify that correct log urls get propagated from workers") {
     sc = new SparkContext("local-cluster[2,1,512]", "test")
+
+    val listener = new SaveExecutorInfo
+    sc.addSparkListener(listener)
+
+    // Trigger a job so that executors get added
+    sc.parallelize(1 to 100, 4).map(_.toString).count()
+
+    assert(sc.listenerBus.waitUntilEmpty(WAIT_TIMEOUT_MILLIS))
+    listener.addedExecutorInfos.values.foreach { info =>
+      assert(info.logUrlMap.nonEmpty)
+      // Browse to each URL to check that it's valid
+      info.logUrlMap.foreach { case (logType, logUrl) =>
+        val html = Source.fromURL(logUrl).mkString
+        assert(html.contains(s"$logType log page"))
+      }
+    }
   }
 
-  test("verify log urls get propagated from workers") {
+  test("verify that log urls reflect SPARK_PUBLIC_DNS (SPARK-6175)") {
+    val SPARK_PUBLIC_DNS = "public_dns"
+    class MySparkConf extends SparkConf(false) {
+      override def getenv(name: String) = {
+        if (name == "SPARK_PUBLIC_DNS") SPARK_PUBLIC_DNS
+        else super.getenv(name)
+      }
+
+      override def clone: SparkConf = {
+        new MySparkConf().setAll(getAll)
+      }
+    }
+    val conf = new MySparkConf()
+    sc = new SparkContext("local-cluster[2,1,512]", "test", conf)
+
     val listener = new SaveExecutorInfo
     sc.addSparkListener(listener)
 
-    val rdd1 = sc.parallelize(1 to 100, 4)
-    val rdd2 = rdd1.map(_.toString)
-    rdd2.setName("Target RDD")
-    rdd2.count()
+    // Trigger a job so that executors get added
+    sc.parallelize(1 to 100, 4).map(_.toString).count()
 
     assert(sc.listenerBus.waitUntilEmpty(WAIT_TIMEOUT_MILLIS))
     listener.addedExecutorInfos.values.foreach { info =>
       assert(info.logUrlMap.nonEmpty)
+      info.logUrlMap.values.foreach { logUrl =>
+        assert(new URL(logUrl).getHost === SPARK_PUBLIC_DNS)
+      }
     }
   }
 

core/src/test/scala/org/apache/spark/deploy/worker/ExecutorRunnerTest.scala

@@ -33,7 +33,7 @@ class ExecutorRunnerTest extends FunSuite {
     val appDesc = new ApplicationDescription("app name", Some(8), 500,
       Command("foo", Seq(appId), Map(), Seq(), Seq(), Seq()), "appUiUrl")
     val er = new ExecutorRunner(appId, 1, appDesc, 8, 500, null, "blah", "worker321", 123,
-      new File(sparkHome), new File("ooga"), "blah", new SparkConf, Seq("localDir"),
+      "publicAddr", new File(sparkHome), new File("ooga"), "blah", new SparkConf, Seq("localDir"),
       ExecutorState.RUNNING)
     val builder = CommandUtils.buildProcessBuilder(appDesc.command, 512, sparkHome, er.substituteVariables)
     assert(builder.command().last === appId)

core/src/test/scala/org/apache/spark/util/UtilsSuite.scala

@@ -386,10 +386,11 @@ class UtilsSuite extends FunSuite with ResetSystemProperties {
   }
 
   test("fetch hcfs dir") {
-    val sourceDir = Utils.createTempDir()
+    val tempDir = Utils.createTempDir()
+    val sourceDir = new File(tempDir, "source-dir")
     val innerSourceDir = Utils.createTempDir(root=sourceDir.getPath)
     val sourceFile = File.createTempFile("someprefix", "somesuffix", innerSourceDir)
-    val targetDir = new File(Utils.createTempDir(), "target-dir")
+    val targetDir = new File(tempDir, "target-dir")
     Files.write("some text", sourceFile, UTF_8)
 
     val path = new Path("file://" + sourceDir.getAbsolutePath)
@@ -413,7 +414,7 @@ class UtilsSuite extends FunSuite with ResetSystemProperties {
     assert(destInnerFile.isFile())
 
     val filePath = new Path("file://" + sourceFile.getAbsolutePath)
-    val testFileDir = new File("test-filename")
+    val testFileDir = new File(tempDir, "test-filename")
     val testFileName = "testFName"
     val testFilefs = Utils.getHadoopFileSystem(filePath.toString, conf)
     Utils.fetchHcfsFile(filePath, testFileDir, testFilefs, new SparkConf(),

docs/_layouts/global.html

@@ -71,7 +71,7 @@
                                 <li><a href="programming-guide.html">Spark Programming Guide</a></li>
                                 <li class="divider"></li>
                                 <li><a href="streaming-programming-guide.html">Spark Streaming</a></li>
-                                <li><a href="sql-programming-guide.html">Spark SQL</a></li>
+                                <li><a href="sql-programming-guide.html">DataFrames and SQL</a></li>
                                 <li><a href="mllib-guide.html">MLlib (Machine Learning)</a></li>
                                 <li><a href="graphx-programming-guide.html">GraphX (Graph Processing)</a></li>
                                 <li><a href="bagel-programming-guide.html">Bagel (Pregel on Spark)</a></li>

docs/index.md

@@ -74,7 +74,7 @@ options for deployment:
   in all supported languages (Scala, Java, Python)
 * Modules built on Spark:
   * [Spark Streaming](streaming-programming-guide.html): processing real-time data streams
-  * [Spark SQL](sql-programming-guide.html): support for structured data and relational queries
+  * [Spark SQL and DataFrames](sql-programming-guide.html): support for structured data and relational queries
   * [MLlib](mllib-guide.html): built-in machine learning library
   * [GraphX](graphx-programming-guide.html): Spark's new API for graph processing
   * [Bagel (Pregel on Spark)](bagel-programming-guide.html): older, simple graph processing model