Question

我有一个亚马逊ec2实例，我正在运行一个名为seqware的工具。它基本上是使用hbase后端的基因组数据的查询引擎。我正在使用伪分布式模式下的hbase设置的ami。我想在完全分布式模式下使用它。所以我已经建立了一个2节点的hadoop集群。一个节点是主节点，另一个节点是从节点。我可以在完全分布式模式和所有内容中运行hadoop示例。为了让seqware使用我的完全ditrbuted设置，它需要6件事，zookeeper quorum，zookeeper客户端端口，hbase master，mapred作业跟踪器，fs默认fs和fs名称。在设置文件中指定了哪些。我把它设置在文件中：

HBASE.ZOOKEEPER.QUORUM=ip-10-x.x.x
HBASE.ZOOKEEPER.PROPERTY.CLIENTPORT=2181
HBASE.MASTER=ip-10-x.x.x:60010
MAPRED.JOB.TRACKER=ip-10-x.x.x:9001
FS.DEFAULT.NAME=hdfs://ip-10-x.x.x:9000
FS.DEFAULTFS=hdfs://ip-10-x.x.x:9000

然而，当我开始使用查询引擎时，我得到了一个zookeeper连接丢失异常。我在seccware的authorized_keys中获得了master的公钥，反之亦然，但是，我不能这样做

ssh ip-10.x.x.x

甚至使用公开的dns：

ssh {public DNS of instance}

其中ip-10.x.x.x是实例的IP地址，我必须使用用户名来完成：

ssh {username}@ip-10-x.x.x

或

ssh username@{public DNS of instance}

我可以在没有用户名从主服务器到slave hadoop实例的情况下ssh，反之亦然，并且我在没有用户名的配置文件中有ip地址

我尝试在设置中的ip地址之前添加用户名，认为有99％的可能性它不起作用，我没有失望，我仍然得到相同的异常

我需要做什么才能从seqware实例ssh到hadoop和hbase master，而不必像在主节点和从节点之间那样指定用户名。

这就是在hadoop master上配置zookeeper的方式：

<configuration>
<property>
    <name>hbase.rootdir</name>
    <value>hdfs://ip-10-x.x.x:9000/hbase</value>
  </property>

  <property>
    <name>hbase.cluster.distributed</name>
    <value>true</value>
  </property>

  <property>
    <name>hbase.zookeeper.quorum</name>
    <value>ip-10-x.x.x</value>
  </property>

  <property>
    <name>dfs.replication</name>
    <value>2</value>
  </property>

  <property>
    <name>hbase.zookeeper.property.dataDir</name>
    <value>/home/{username}/hbase/zookeeper</value>
  </property>

  <property>
    <name>hbase.zookeeper.property.clientPort</name>
    <value>2181</value>
  </property>
</configuration>

我不能自信地谈论seqware的内部实现，但我知道它使用设置文件来设置zookeepr和hbase master的位置。在默认的伪分布式工作设置中，这些是我之前提到的变量的值：

HBASE.ZOOKEEPER.QUORUM=localhost
HBASE.ZOOKEEPER.PROPERTY.CLIENTPORT=2181
HBASE.MASTER=localhost:60000
MAPRED.JOB.TRACKER=localhost:8021
FS.DEFAULT.NAME=hdfs://localhost:8020
FS.DEFAULTFS=hdfs://localhost:8020

这就是zoo.cfg文件的样子：

# 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.

maxClientCnxns=50
# The number of milliseconds of each tick
tickTime=2000
# The number of ticks that the initial
# synchronization phase can take
initLimit=10
# The number of ticks that can pass between
# sending a request and getting an acknowledgement
syncLimit=5
# the directory where the snapshot is stored.
dataDir=/var/lib/zookeeper
# the port at which the clients will connect
clientPort=2181

Zookeeper stacktrace：

[seqware@master target]$ java -classpath seqware-distribution-0.13.6.8-qe-full.jar

com.github.seqware.queryengine.system.ReferenceCreator hg_19 keyValue_ref.out 
[SeqWare Query Engine] 0 [main] ERROR org.apache.hadoop.hbase.zookeeper.RecoverableZooKeeper - ZooKeeper exists failed after 3 retries
[SeqWare Query Engine] 1 [main] ERROR org.apache.hadoop.hbase.zookeeper.ZooKeeperWatcher - hconnection Received unexpected KeeperException, re-throwing exception org.apache.zookeeper.KeeperException$ConnectionLossException: KeeperErrorCode = ConnectionLoss for /hbase/master at 
org.apache.zookeeper.KeeperException.create(KeeperException.java:99) at 
org.apache.zookeeper.KeeperException.create(KeeperException.java:51) at 
org.apache.zookeeper.ZooKeeper.exists(ZooKeeper.java:1021)   
at org.apache.hadoop.hbase.zookeeper.RecoverableZooKeeper.exists(RecoverableZooKeep‌er.java:154) at                org.apache.hadoop.hbase.zookeeper.ZKUtil.watchAndCheckExists(ZKUtil.java:226)at            org.apache.hadoop.hbase.zookeeper.ZooKeeperNodeTracker.start(ZooKeeperNodeTracke‌r.java:82)  at org.apache.hadoop.hbase.client.HConnectionManager$HConnectionImplementation.setu‌pZookeeperTrackers(HConnectionManager.java:580)

2013年8月13日显然，需要为远程hbase设置设置的变量不是我正在编辑的变量，基于seqware constants.java文件，它们是qe变量：https://github.com/SeqWare/seqware/blob/develop/seqware-queryengine/src/main/java/com/github/seqware/queryengine/Constants.java

我已将它们编辑为：

# SEQWARE QUERY ENGINE AND GENERAL HADOOP SETTINGS
#
HBASE.ZOOKEEPER.QUORUM=localhost
HBASE.ZOOKEEPER.PROPERTY.CLIENTPORT=2181
HBASE.MASTER=localhost:60000
MAPRED.JOB.TRACKER=localhost:8021
FS.DEFAULT.NAME=hdfs://localhost:8020
FS.DEFAULTFS=hdfs://localhost:8020
FS.HDFS.IMPL=org.apache.hadoop.hdfs.DistributedFileSystem
#
# SEQWARE QUERY ENGINE SETTINGS
#
QE_NAMESPACE=SeqWareQE
QE_DEVELOPMENT_DEPENDENCY=file:/home/seqware/jars/seqware-distribution-0.13.6.5-qe-full.jar
QE_PERSIST=true
QE_HBASE_REMOTE_TESTING=true
QE_HBASE_PROPERTIES=HBOOT
QE_HBOOT_HBASE_ZOOKEEPER_QUORUM=ip-10-x.x.x.ec2.internal
QE_HBOOT_HBASE_ZOOKEEPER_PROPERTY_CLIENTPORT=2181
QE_HBOOT_HBASE_MASTER=ip-10-x.x.x.ec2.internal:60010
QE_HBOOT_MAPRED_JOB_TRACKER=ip-10-x.x.x.ec2.internal:9001
QE_HBOOT_FS_DEFAULT_NAME=hdfs://ip-10-x.x.x.ec2.internal:9000
QE_HBOOT_FS_DEFAULTFS=hdfs://ip-10-x.x.x.ec2.internal:9000
QE_HBOOT_FS_HDFS_IMPL=org.apache.hadoop.hdfs.DistributedFileSystem

我不再获得zookeeper exceptiona，但是在我停止之前，创建工作区的命令会挂起几分钟。

我在我的zookepper日志中发现了这个，我不确定是否意味着，那个zookeeper崩溃了，或者它失去了与它所声明的客户端的连接。我不知道为什么它接受来自端口36997,36998,37000和37034的套接字连接，我甚至没有在ec2安全组上授予他们权限：

2013-08-13 16:44:55,560 INFO org.apache.zookeeper.server.ZooKeeperServer: Established session 0x1407890cb630000 with negotiated timeout 180000 for client /10.x.x.x:36997
2013-08-13 16:44:57,633 INFO org.apache.zookeeper.server.NIOServerCnxnFactory: Accepted socket connection from /10.x.x.x:36998
2013-08-13 16:44:57,662 INFO org.apache.zookeeper.server.ZooKeeperServer: Client attempting to establish new session at /10.x.x.x:36998
2013-08-13 16:44:57,666 INFO org.apache.zookeeper.server.ZooKeeperServer: Established session 0x1407890cb630001 with negotiated timeout 180000 for client /10.x.x.x:36998
2013-08-13 16:44:57,917 INFO org.apache.zookeeper.server.PrepRequestProcessor: Got user-level KeeperException when processing sessionid:0x1407890cb630001 type:create cxid:0x8 zxid:0x219 txntype:-1 reqpath:n/a Error Path:/hbase/online-snapshot/acquired Error:KeeperErrorCode = NodeExists for /hbase/online-snapshot/acquired
2013-08-13 16:44:58,450 INFO org.apache.zookeeper.server.PrepRequestProcessor: Got user-level KeeperException when processing sessionid:0x1407890cb630000 type:create cxid:0xb zxid:0x21a txntype:-1 reqpath:n/a Error Path:/hbase/master Error:KeeperErrorCode = NodeExists for /hbase/master
2013-08-13 16:45:00,927 INFO org.apache.zookeeper.server.NIOServerCnxnFactory: Accepted socket connection from /10.x.x.x:37000
2013-08-13 16:45:00,928 INFO org.apache.zookeeper.server.ZooKeeperServer: Client attempting to establish new session at /10.x.x.x:37000
2013-08-13 16:45:00,930 INFO org.apache.zookeeper.server.ZooKeeperServer: Established session 0x1407890cb630002 with negotiated timeout 180000 for client /10.x.x.x:37000
2013-08-13 16:45:02,165 INFO org.apache.zookeeper.server.PrepRequestProcessor: Got user-level KeeperException when processing sessionid:0x1407890cb630000 type:create cxid:0x24 zxid:0x221 txntype:-1 reqpath:n/a Error Path:/hbase/online-snapshot/acquired Error:KeeperErrorCode = NodeExists for /hbase/online-snapshot/acquired
2013-08-13 16:45:14,172 INFO org.apache.zookeeper.server.NIOServerCnxnFactory: Accepted socket connection from /10.x.x.x:37034
2013-08-13 16:45:14,173 INFO org.apache.zookeeper.server.ZooKeeperServer: Client attempting to establish new session at /10.x.x.x:37034
2013-08-13 16:45:14,178 INFO org.apache.zookeeper.server.ZooKeeperServer: Established session 0x1407890cb630003 with negotiated timeout 180000 for client /10.x.x.x:37034
2013-08-13 16:47:51,000 INFO org.apache.zookeeper.server.ZooKeeperServer: Expiring session 0x1407800784a0003, timeout of 180000ms exceeded
2013-08-13 16:47:51,001 INFO org.apache.zookeeper.server.ZooKeeperServer: Expiring session 0x1407800784a0001, timeout of 180000ms exceeded
2013-08-13 16:47:51,001 INFO org.apache.zookeeper.server.ZooKeeperServer: Expiring session 0x1407800784a0000, timeout of 180000ms exceeded
2013-08-13 16:47:51,001 INFO org.apache.zookeeper.server.ZooKeeperServer: Expiring session 0x1407800784a0002, timeout of 180000ms exceeded
2013-08-13 16:47:51,001 INFO org.apache.zookeeper.server.PrepRequestProcessor: Processed session termination for sessionid: 0x1407800784a0003
2013-08-13 16:47:51,001 INFO org.apache.zookeeper.server.PrepRequestProcessor: Processed session termination for sessionid: 0x1407800784a0001
2013-08-13 16:47:51,001 INFO org.apache.zookeeper.server.PrepRequestProcessor: Processed session termination for sessionid: 0x1407800784a0000
2013-08-13 16:47:51,002 INFO org.apache.zookeeper.server.PrepRequestProcessor: Processed session termination for sessionid: 0x1407800784a0002

我查看了hbase web界面，它显示实际上正在创建表，但是要创建的命令永远不会返回响应，它们只是挂起。 Hbase master web interface tables

HBase Web Interface

Answer 1

尝试更改，

<property>
   <name>hbase.zookeeper.quorum</name>
   <value>ip-10-x.x.x</value>
</property>

到此，

<property>
   <name>hbase.zookeeper.quorum</name>
   <value>localhost</value>
</property>

然后重启hbase和Zookeeper

而且，还建议将其作为您的seqware配置

# SEQWARE QUERY ENGINE AND GENERAL HADOOP SETTINGS
#
HBASE.ZOOKEEPER.QUORUM=localhost
HBASE.ZOOKEEPER.PROPERTY.CLIENTPORT=2181
HBASE.MASTER=localhost:60000
MAPRED.JOB.TRACKER=localhost:8021
FS.DEFAULT.NAME=hdfs://localhost:8020
FS.DEFAULTFS=hdfs://localhost:8020
FS.HDFS.IMPL=org.apache.hadoop.hdfs.DistributedFileSystem
#
# SEQWARE QUERY ENGINE SETTINGS
#
QE_NAMESPACE=SeqWareQE
QE_DEVELOPMENT_DEPENDENCY=file:/home/seqware/jars/seqware-distribution-0.13.6.5-qe-full.jar
QE_PERSIST=true
QE_HBASE_REMOTE_TESTING=true
QE_HBASE_PROPERTIES=HBOOT
QE_HBOOT_HBASE_ZOOKEEPER_QUORUM=ip-10-x.x.x.ec2.internal
QE_HBOOT_HBASE_ZOOKEEPER_PROPERTY_CLIENTPORT=2181
QE_HBOOT_HBASE_MASTER=ip-10-x.x.x.ec2.internal:60010
QE_HBOOT_MAPRED_JOB_TRACKER=ip-10-x.x.x.ec2.internal:9001
QE_HBOOT_FS_DEFAULT_NAME=hdfs://ip-10-x.x.x.ec2.internal:9000
QE_HBOOT_FS_DEFAULTFS=hdfs://ip-10-x.x.x.ec2.internal:9000
QE_HBOOT_FS_HDFS_IMPL=org.apache.hadoop.hdfs.DistributedFileSystem

另外，请尝试指南here和here。

您还提到了一个可能的Zookeeper端口尚未打开。为了测试pupose，我建议你禁用防火墙。因为我之前看到过几个问题，这是因为防火墙阻塞了重要的端口。

不能拒绝ssh权限。 HBase Hadoop

1 个答案: