java.io.IOException : ensureRemaining: Only 0 bytes remaining, 试图读取 1

Question

我在使用 giraph 中的自定义类时遇到了一些问题。我制作了 VertexInput 和 Output 格式，但我总是收到以下错误:

java.io.IOException: ensureRemaining: Only * bytes remaining, trying to read *

在“*”所在的位置具有不同的值。

这是在单节点集群上测试的。

当 vertexIterator 执行 next() 并且没有更多的顶点时，会发生此问题。这个迭代器是从 flush 方法调用的，但我基本上不明白为什么“next()”方法失败。这里有一些日志和类...

我的日志如下:

15/09/08 00:52:21 INFO bsp.BspService: BspService: Connecting to ZooKeeper with job giraph_yarn_application_1441683854213_0001, 1 on localhost:22181
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:zookeeper.version=3.4.5-1392090, built on 09/30/2012 17:52 GMT
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:host.name=localhost
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:java.version=1.7.0_79
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:java.vendor=Oracle Corporation
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:java.home=/usr/lib/jvm/java-7-openjdk-amd64/jre
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:java.class.path=.:${CLASSPATH}:./**/
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/l$
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:java.io.tmpdir=/tmp
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:java.compiler=<NA>
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:os.name=Linux
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:os.arch=amd64
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:os.version=3.13.0-62-generic
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:user.name=hduser
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:user.home=/home/hduser
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Client environment:user.dir=/app/hadoop/tmp/nm-local-dir/usercache/hduser/appcache/application_1441683854213_0001/container_1441683854213_0001_01_000003
15/09/08 00:52:21 INFO zookeeper.ZooKeeper: Initiating client connection, connectString=localhost:22181 sessionTimeout=60000 watcher=org.apache.giraph.worker.BspServiceWorker@4256d3a0
15/09/08 00:52:21 INFO zookeeper.ClientCnxn: Opening socket connection to server localhost/127.0.0.1:22181. Will not attempt to authenticate using SASL (unknown error)
15/09/08 00:52:21 INFO zookeeper.ClientCnxn: Socket connection established to localhost/127.0.0.1:22181, initiating session
15/09/08 00:52:21 INFO zookeeper.ClientCnxn: Session establishment complete on server localhost/127.0.0.1:22181, sessionid = 0x14fab0de0bb0002, negotiated timeout = 40000
15/09/08 00:52:21 INFO bsp.BspService: process: Asynchronous connection complete.
15/09/08 00:52:21 INFO netty.NettyServer: NettyServer: Using execution group with 8 threads for requestFrameDecoder.
15/09/08 00:52:21 INFO Configuration.deprecation: mapred.map.tasks is deprecated. Instead, use mapreduce.job.maps
15/09/08 00:52:21 INFO netty.NettyServer: start: Started server communication server: localhost/127.0.0.1:30001 with up to 16 threads on bind attempt 0 with sendBufferSize = 32768 receiveBufferSize = 524288
15/09/08 00:52:21 INFO netty.NettyClient: NettyClient: Using execution handler with 8 threads after request-encoder.
15/09/08 00:52:21 INFO graph.GraphTaskManager: setup: Registering health of this worker...
15/09/08 00:52:21 INFO yarn.GiraphYarnTask: [STATUS: task-1] WORKER_ONLY starting...
15/09/08 00:52:22 INFO bsp.BspService: getJobState: Job state already exists (/_hadoopBsp/giraph_yarn_application_1441683854213_0001/_masterJobState)
15/09/08 00:52:22 INFO bsp.BspService: getApplicationAttempt: Node /_hadoopBsp/giraph_yarn_application_1441683854213_0001/_applicationAttemptsDir already exists!
15/09/08 00:52:22 INFO bsp.BspService: getApplicationAttempt: Node /_hadoopBsp/giraph_yarn_application_1441683854213_0001/_applicationAttemptsDir already exists!
15/09/08 00:52:22 INFO worker.BspServiceWorker: registerHealth: Created my health node for attempt=0, superstep=-1 with /_hadoopBsp/giraph_yarn_application_1441683854213_0001/_applicationAttemptsDir/0/_superstepD$
15/09/08 00:52:22 INFO netty.NettyServer: start: Using Netty without authentication.
15/09/08 00:52:22 INFO bsp.BspService: process: partitionAssignmentsReadyChanged (partitions are assigned)
15/09/08 00:52:22 INFO worker.BspServiceWorker: startSuperstep: Master(hostname=localhost, MRtaskID=0, port=30000)
15/09/08 00:52:22 INFO worker.BspServiceWorker: startSuperstep: Ready for computation on superstep -1 since worker selection and vertex range assignments are done in /_hadoopBsp/giraph_yarn_application_1441683854$
15/09/08 00:52:22 INFO yarn.GiraphYarnTask: [STATUS: task-1] startSuperstep: WORKER_ONLY - Attempt=0, Superstep=-1
15/09/08 00:52:22 INFO netty.NettyClient: Using Netty without authentication.
15/09/08 00:52:22 INFO netty.NettyClient: Using Netty without authentication.
15/09/08 00:52:22 INFO netty.NettyClient: connectAllAddresses: Successfully added 2 connections, (2 total connected) 0 failed, 0 failures total.
15/09/08 00:52:22 INFO netty.NettyServer: start: Using Netty without authentication.
15/09/08 00:52:22 INFO handler.RequestDecoder: decode: Server window metrics MBytes/sec received = 0, MBytesReceived = 0.0001, ave received req MBytes = 0.0001, secs waited = 1.44168435E9
15/09/08 00:52:22 INFO worker.BspServiceWorker: loadInputSplits: Using 1 thread(s), originally 1 threads(s) for 1 total splits.
15/09/08 00:52:22 INFO worker.InputSplitsHandler: reserveInputSplit: Reserved input split path /_hadoopBsp/giraph_yarn_application_1441683854213_0001/_vertexInputSplitDir/0, overall roughly 0.0% input splits rese$
15/09/08 00:52:22 INFO worker.InputSplitsCallable: getInputSplit: Reserved /_hadoopBsp/giraph_yarn_application_1441683854213_0001/_vertexInputSplitDir/0 from ZooKeeper and got input split 'hdfs://hdnode01:54310/u$
15/09/08 00:52:22 INFO worker.InputSplitsCallable: loadFromInputSplit: Finished loading /_hadoopBsp/giraph_yarn_application_1441683854213_0001/_vertexInputSplitDir/0 (v=6, e=10)
15/09/08 00:52:22 INFO worker.InputSplitsCallable: call: Loaded 1 input splits in 0.16241108 secs, (v=6, e=10) 36.94329 vertices/sec, 61.572155 edges/sec
15/09/08 00:52:22 ERROR utils.LogStacktraceCallable: Execution of callable failed

java.lang.IllegalStateException: next: IOException
        at org.apache.giraph.utils.VertexIterator.next(VertexIterator.java:101)
        at org.apache.giraph.partition.BasicPartition.addPartitionVertices(BasicPartition.java:99)
        at org.apache.giraph.comm.requests.SendWorkerVerticesRequest.doRequest(SendWorkerVerticesRequest.java:115)
        at org.apache.giraph.comm.netty.NettyWorkerClientRequestProcessor.doRequest(NettyWorkerClientRequestProcessor.java:466)
        at org.apache.giraph.comm.netty.NettyWorkerClientRequestProcessor.flush(NettyWorkerClientRequestProcessor.java:412)
        at org.apache.giraph.worker.InputSplitsCallable.call(InputSplitsCallable.java:241)
        at org.apache.giraph.worker.InputSplitsCallable.call(InputSplitsCallable.java:60)
        at org.apache.giraph.utils.LogStacktraceCallable.call(LogStacktraceCallable.java:51)
        at java.util.concurrent.FutureTask.run(FutureTask.java:262)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
        at java.lang.Thread.run(Thread.java:745)
Caused by: java.io.IOException: ensureRemaining: Only 0 bytes remaining, trying to read 1
        at org.apache.giraph.utils.UnsafeReads.ensureRemaining(UnsafeReads.java:77)
        at org.apache.giraph.utils.UnsafeArrayReads.readByte(UnsafeArrayReads.java:123)
        at org.apache.giraph.utils.UnsafeReads.readLine(UnsafeReads.java:100)
        at pruebas.TextAndDoubleComplexWritable.readFields(TextAndDoubleComplexWritable.java:37)
        at org.apache.giraph.utils.WritableUtils.reinitializeVertexFromDataInput(WritableUtils.java:540)
        at org.apache.giraph.utils.VertexIterator.next(VertexIterator.java:98)
        ... 11 more
15/09/08 00:52:22 ERROR worker.BspServiceWorker: unregisterHealth: Got failure, unregistering health on /_hadoopBsp/giraph_yarn_application_1441683854213_0001/_applicationAttemptsDir/0/_superstepDir/-1/_workerHea$
15/09/08 00:52:22 ERROR yarn.GiraphYarnTask: GiraphYarnTask threw a top-level exception, failing task
java.lang.RuntimeException: run: Caught an unrecoverable exception waitFor: ExecutionException occurred while waiting for org.apache.giraph.utils.ProgressableUtils$FutureWaitable@4bbf48f0
        at org.apache.giraph.yarn.GiraphYarnTask.run(GiraphYarnTask.java:104)
        at org.apache.giraph.yarn.GiraphYarnTask.main(GiraphYarnTask.java:183)
Caused by: java.lang.IllegalStateException: waitFor: ExecutionException occurred while waiting for org.apache.giraph.utils.ProgressableUtils$FutureWaitable@4bbf48f0
        at org.apache.giraph.utils.ProgressableUtils.waitFor(ProgressableUtils.java:193)
        at org.apache.giraph.utils.ProgressableUtils.waitForever(ProgressableUtils.java:151)
        at org.apache.giraph.utils.ProgressableUtils.waitForever(ProgressableUtils.java:136)
        at org.apache.giraph.utils.ProgressableUtils.getFutureResult(ProgressableUtils.java:99)
        at org.apache.giraph.utils.ProgressableUtils.getResultsWithNCallables(ProgressableUtils.java:233)
        at org.apache.giraph.worker.BspServiceWorker.loadInputSplits(BspServiceWorker.java:316)
        at org.apache.giraph.worker.BspServiceWorker.loadVertices(BspServiceWorker.java:409)
        at org.apache.giraph.worker.BspServiceWorker.setup(BspServiceWorker.java:629)
        at org.apache.giraph.graph.GraphTaskManager.execute(GraphTaskManager.java:284)
        at org.apache.giraph.yarn.GiraphYarnTask.run(GiraphYarnTask.java:92)
        ... 1 more
Caused by: java.util.concurrent.ExecutionException: java.lang.IllegalStateException: next: IOException
        at java.util.concurrent.FutureTask.report(FutureTask.java:122)
        at java.util.concurrent.FutureTask.get(FutureTask.java:202)
        at org.apache.giraph.utils.ProgressableUtils$FutureWaitable.waitFor(ProgressableUtils.java:312)
        at org.apache.giraph.utils.ProgressableUtils.waitFor(ProgressableUtils.java:185)
        ... 10 more
Caused by: java.lang.IllegalStateException: next: IOException
        at org.apache.giraph.utils.VertexIterator.next(VertexIterator.java:101)
        at org.apache.giraph.partition.BasicPartition.addPartitionVertices(BasicPartition.java:99)
        at org.apache.giraph.comm.requests.SendWorkerVerticesRequest.doRequest(SendWorkerVerticesRequest.java:115)
        at org.apache.giraph.comm.netty.NettyWorkerClientRequestProcessor.doRequest(NettyWorkerClientRequestProcessor.java:466)
        at org.apache.giraph.comm.netty.NettyWorkerClientRequestProcessor.flush(NettyWorkerClientRequestProcessor.java:412)
        at org.apache.giraph.worker.InputSplitsCallable.call(InputSplitsCallable.java:241)
        at org.apache.giraph.worker.InputSplitsCallable.call(InputSplitsCallable.java:60)
        at org.apache.giraph.utils.LogStacktraceCallable.call(LogStacktraceCallable.java:51)
        at java.util.concurrent.FutureTask.run(FutureTask.java:262)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
        at java.lang.Thread.run(Thread.java:745)
Caused by: java.io.IOException: ensureRemaining: Only 0 bytes remaining, trying to read 1
        at org.apache.giraph.utils.UnsafeReads.ensureRemaining(UnsafeReads.java:77)
        at org.apache.giraph.utils.UnsafeArrayReads.readByte(UnsafeArrayReads.java:123)
        at org.apache.giraph.utils.UnsafeReads.readLine(UnsafeReads.java:100)
        at pruebas.TextAndDoubleComplexWritable.readFields(TextAndDoubleComplexWritable.java:37)
        at org.apache.giraph.utils.WritableUtils.reinitializeVertexFromDataInput(WritableUtils.java:540)
        at org.apache.giraph.utils.VertexIterator.next(VertexIterator.java:98)
        ... 11 more

我的输入格式:

package pruebas;

import org.apache.giraph.edge.Edge;
import org.apache.giraph.edge.EdgeFactory;
import org.apache.giraph.io.formats.AdjacencyListTextVertexInputFormat;
import org.apache.hadoop.io.DoubleWritable;
import org.apache.hadoop.io.Text;
import org.apache.hadoop.mapreduce.InputSplit;
import org.apache.hadoop.mapreduce.TaskAttemptContext;

/**
 * @author hduser
 *
 */
public class IdTextWithComplexValueInputFormat
        extends
        AdjacencyListTextVertexInputFormat<Text, TextAndDoubleComplexWritable, DoubleWritable> {

    @Override
    public AdjacencyListTextVertexReader createVertexReader(InputSplit split,
            TaskAttemptContext context) {
        return new TextComplexValueDoubleAdjacencyListVertexReader();
    }

    protected class TextComplexValueDoubleAdjacencyListVertexReader extends
            AdjacencyListTextVertexReader {

        /**
         * Constructor with
         * {@link AdjacencyListTextVertexInputFormat.LineSanitizer}.
         *
         * @param lineSanitizer
         *            the sanitizer to use for reading
         */
        public TextComplexValueDoubleAdjacencyListVertexReader() {
            super();
        }

        @Override
        public Text decodeId(String s) {
            return new Text(s);
        }

        @Override
        public TextAndDoubleComplexWritable decodeValue(String s) {
            TextAndDoubleComplexWritable valorComplejo = new TextAndDoubleComplexWritable();
            valorComplejo.setVertexData(Double.valueOf(s));
            valorComplejo.setIds_vertices_anteriores("");
            return valorComplejo;
        }

        @Override
        public Edge<Text, DoubleWritable> decodeEdge(String s1, String s2) {
            return EdgeFactory.create(new Text(s1),
                    new DoubleWritable(Double.valueOf(s2)));
        }
    }

}

TextAndDoubleComplexWritable:

package pruebas;

import java.io.DataInput;
import java.io.DataOutput;
import java.io.IOException;

import org.apache.hadoop.io.Writable;

public class TextAndDoubleComplexWritable implements Writable {

    private String idsVerticesAnteriores;

    private double vertexData;

    public TextAndDoubleComplexWritable() {
        super();
        this.idsVerticesAnteriores = "";
    }

    public TextAndDoubleComplexWritable(double vertexData) {
        super();
        this.vertexData = vertexData;
    }

    public TextAndDoubleComplexWritable(String ids_vertices_anteriores,
            double vertexData) {
        super();
        this.idsVerticesAnteriores = ids_vertices_anteriores;
        this.vertexData = vertexData;
    }

    public void write(DataOutput out) throws IOException {
        out.writeUTF(idsVerticesAnteriores);
    }

    public void readFields(DataInput in) throws IOException {
        idsVerticesAnteriores = in.readLine();
    }

    public String getIds_vertices_anteriores() {
        return idsVerticesAnteriores;
    }

    public void setIds_vertices_anteriores(String ids_vertices_anteriores) {
        this.idsVerticesAnteriores = ids_vertices_anteriores;
    }

    public double getVertexData() {
        return vertexData;
    }

    public void setVertexData(double vertexData) {
        this.vertexData = vertexData;
    }
}

我的输入文件:

Portada 0.0     Sugerencias     1.0
Sugerencias     3.0     Portada 1.0

然后我用这个命令执行它:

$HADOOP_HOME/bin/yarn jar $GIRAPH_HOME/giraph-examples/target/giraph-examples-1.1.0-for-hadoop-2.4.0-jar-with-dependencies.jar org.apache.giraph.GiraphRunner lectura_de_grafo.BusquedaDeCaminosNavegacionalesWikiquote -vif pruebas.IdTextWithComplexValueInputFormat -vip /user/hduser/input/wiki-graph-chiquito.txt -op /user/hduser/output/caminosNavegacionales -w 2 -yh 250

如有任何帮助，我们将不胜感激!

---

更新:我的输入文件是错误的。 Giraph(或我的例子)处理得不是很好传出到未列出的顶点。

但是问题还是出现了。我更新了原始问题的文件数据。

更新 2:不使用 OutputFormat，也从不执行计算算法。我将两者都删除以帮助澄清问题。

更新 3，2015 年 11 月 19 日:问题不在于输入格式，输入格式运行良好并且可以完整读取数据。问题出在 TextAndDoubleComplexWritable 类中，我将其添加到我的原始问题中，以便更好地解释最终解决方案(我也添加了一个答案)。

Answer 1

这是异常 org.apache.giraph.utils.UnsafeReads.ensureRemaining 的根本原因。请注意，这是由 giraph 实用程序调用的。

异常意味着读取器坚持认为它需要来自输入流的更多输入，但输入流没有剩下那么多输入(即它到达了 EOF)。