How to solve the 'Lock obtain timed out' w

I have two cores for our Solr system (Solr version 3.6.1). When I invoke the following command line on our dedicated Solr server to add and then index a file:

java -Durl=http://solrprod:8080/solr/original/update -jar /home/solr/solr3/biomina/solr/post.jar /home/solr/tmp/2008/c2m-dump-01.noDEID_clean.xml

I get an exception in /usr/share/tomcat7/logs/solr.2013-12-11.log file (after about 6 minutes of waiting):

SEVERE: org.apache.lucene.store.LockObtainFailedException: Lock obtain timed out: NativeFSLock@/home/solr/solr3/biomina/solr/original/data/index/write.lock

(You can see the detailed output of it at the end of this message).

I tried to modify the time-out for locks (by setting writeLockTimeout to 300000) , but this did not solve the problem. I'm not using any custom script, just the post.jar that comes with Solr 3.1.6, to add and index.

Any ideas about what needs to be changed to get rid of this error and successfully add the XML file about to Solr and index it?

Contents of /home/solr/solr3/biomina/solr/solr.xml:

<?xml version="1.0" encoding="UTF-8" ?>
<!--
 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.
-->

<!--
 All (relative) paths are relative to the installation path

  persistent: Save changes made via the API to this file
  sharedLib: path to a lib directory that will be shared across all cores
-->
<solr persistent="true">

  <!--
  adminPath: RequestHandler path to manage cores.  
    If 'null' (or absent), cores will not be manageable via request handler
  -->
  <cores adminPath="/admin/cores">
    <core name="original" instanceDir="original" />
    <core name="deidentified" instanceDir="deidentified" />
  </cores>
</solr>

Relevat part of solrconfig.xml (for the core named original):

<indexConfig>
    <!-- maxFieldLength specifies max number of *tokens* indexed per 
field. Default: 10000 -->
    <!-- <maxFieldLength>10000</maxFieldLength>  -->
    <!-- Maximum time to wait for a write lock (ms) for an IndexWriter. 
Default: 1000 -->
    <writeLockTimeout>300000</writeLockTimeout>

Relevat part of solrconfig.xml (for the core named deidentified):

<indexConfig>
    <!-- maxFieldLength specifies max number of *tokens* indexed per 
field. Default: 10000 -->
    <!-- <maxFieldLength>10000</maxFieldLength>  -->
    <!-- Maximum time to wait for a write lock (ms) for an IndexWriter. 
Default: 1000 -->
    <writeLockTimeout>300000</writeLockTimeout>

Detailed Output of Exception

Dec 11, 2013 11:27:25 AM org.apache.solr.core.SolrCore execute
INFO: [original] webapp=/solr path=/update params={} status=500 QTime=300070 
Dec 11, 2013 11:32:25 AM org.apache.solr.common.SolrException log
SEVERE: org.apache.lucene.store.LockObtainFailedException: Lock obtain timed out: NativeFSLock@/home/solr/solr3/biomina/solr/original/data/index/write.lock
    at org.apache.lucene.store.Lock.obtain(Lock.java:84)
    at org.apache.lucene.index.IndexWriter.<init>(IndexWriter.java:1098)
    at org.apache.solr.update.SolrIndexWriter.<init>(SolrIndexWriter.java:84)
    at org.apache.solr.update.UpdateHandler.createMainIndexWriter(UpdateHandler.java:101)
    at org.apache.solr.update.DirectUpdateHandler2.openWriter(DirectUpdateHandler2.java:171)
    at org.apache.solr.update.DirectUpdateHandler2.addDoc(DirectUpdateHandler2.java:219)
    at org.apache.solr.update.processor.RunUpdateProcessor.processAdd(RunUpdateProcessorFactory.java:61)
    at org.apache.solr.update.processor.LogUpdateProcessor.processAdd(LogUpdateProcessorFactory.java:115)
    at org.apache.solr.handler.XMLLoader.processUpdate(XMLLoader.java:157)
    at org.apache.solr.handler.XMLLoader.load(XMLLoader.java:79)
    at org.apache.solr.handler.ContentStreamHandlerBase.handleRequestBody(ContentStreamHandlerBase.java:58)
    at org.apache.solr.handler.RequestHandlerBase.handleRequest(RequestHandlerBase.java:129)
    at org.apache.solr.core.SolrCore.execute(SolrCore.java:1376)
    at org.apache.solr.servlet.SolrDispatchFilter.execute(SolrDispatchFilter.java:365)
    at org.apache.solr.servlet.SolrDispatchFilter.doFilter(SolrDispatchFilter.java:260)
    at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:243)
    at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:210)
    at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:222)
    at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:123)
    at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:502)
    at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:171)
    at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:99)
    at org.apache.catalina.valves.AccessLogValve.invoke(AccessLogValve.java:953)
    at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:118)
    at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:408)
    at org.apache.coyote.http11.AbstractHttp11Processor.process(AbstractHttp11Processor.java:1023)
    at org.apache.coyote.AbstractProtocol$AbstractConnectionHandler.process(AbstractProtocol.java:589)
    at org.apache.tomcat.util.net.JIoEndpoint$SocketProcessor.run(JIoEndpoint.java:310)
    at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1156)
    at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:626)
    at java.lang.Thread.run(Thread.java:804)

Dec 11, 2013 11:32:25 AM org.apache.solr.core.SolrCore execute
INFO: [original] webapp=/solr path=/update params={} status=500 QTime=556916

System details:

uname -a

Linux solrprod 3.0.93-0.8-default #1 SMP Tue Aug 27 08:44:18 UTC 2013 (70ed288) x86_64 x86_64 x86_64 GNU/Linux

java -version

java version "1.7.0"
Java(TM) SE Runtime Environment (build pxa6470sr6-20131015_01(SR6))
IBM J9 VM (build 2.6, JRE 1.7.0 Linux amd64-64 Compressed References 20131013_170512 (JIT enabled, AOT enabled)
J9VM - R26_Java726_SR6_20131013_1510_B170512
JIT  - r11.b05_20131003_47443
GC   - R26_Java726_SR6_20131013_1510_B170512_CMPRSS
J9CL - 20131013_170512)
JCL - 20131011_01 based on Oracle 7u45-b18

回答1:

The following modifications solved the issue:

Applied the changes described at https://stackoverflow.com/a/3035916/236007
Switched to Oracle Java runtime (it was IBM Java runtime).
Put the ulimit -v unlimited in /etc/init.d/tomcat7.
Modified the /usr/share/tomcat7/bin/setenv.sh file as the following (giving it about 4 GB memory):
export JAVA_OPTS="$JAVA_OPTS -Xmx4000m -XX:+HeapDumpOnOutOfMemoryError -XX:HeapDumpPath=/mnt/data/tomcat_dump"

回答2:

Got issues with Lock obtain timed out for write.lock file. It occured after a pretty hard reset and it turned out that I, after restart, had two processes running since the first had been ungracefully killed before.

Running ps aux | grep solr and killing the corrupted process and let the other start up then solved the issue.

回答3:

I had these error for general Lucene library usage and the problem were file system errors, i.e. the reproducible error disappeared after fsck with repair. I add this answer in this question, as I found this question first.