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Posted to common-issues@hadoop.apache.org by "Hadoop QA (JIRA)" <ji...@apache.org> on 2016/01/25 11:13:40 UTC
[jira] [Commented] (HADOOP-12739) Deadlock with OrcInputFormat
split threads and Jets3t connections, since, NativeS3FileSystem does not
release connections with seek()
[ https://issues.apache.org/jira/browse/HADOOP-12739?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=15114999#comment-15114999 ]
Hadoop QA commented on HADOOP-12739:
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| (x) *{color:red}-1 overall{color}* |
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|| Vote || Subsystem || Runtime || Comment ||
| {color:blue}0{color} | {color:blue} reexec {color} | {color:blue} 0m 0s {color} | {color:blue} Docker mode activated. {color} |
| {color:green}+1{color} | {color:green} @author {color} | {color:green} 0m 0s {color} | {color:green} The patch does not contain any @author tags. {color} |
| {color:red}-1{color} | {color:red} test4tests {color} | {color:red} 0m 0s {color} | {color:red} The patch doesn't appear to include any new or modified tests. Please justify why no new tests are needed for this patch. Also please list what manual steps were performed to verify this patch. {color} |
| {color:green}+1{color} | {color:green} mvninstall {color} | {color:green} 7m 58s {color} | {color:green} trunk passed {color} |
| {color:green}+1{color} | {color:green} compile {color} | {color:green} 0m 12s {color} | {color:green} trunk passed with JDK v1.8.0_66 {color} |
| {color:green}+1{color} | {color:green} compile {color} | {color:green} 0m 14s {color} | {color:green} trunk passed with JDK v1.7.0_91 {color} |
| {color:green}+1{color} | {color:green} checkstyle {color} | {color:green} 0m 9s {color} | {color:green} trunk passed {color} |
| {color:green}+1{color} | {color:green} mvnsite {color} | {color:green} 0m 20s {color} | {color:green} trunk passed {color} |
| {color:green}+1{color} | {color:green} mvneclipse {color} | {color:green} 0m 13s {color} | {color:green} trunk passed {color} |
| {color:green}+1{color} | {color:green} findbugs {color} | {color:green} 0m 31s {color} | {color:green} trunk passed {color} |
| {color:green}+1{color} | {color:green} javadoc {color} | {color:green} 0m 13s {color} | {color:green} trunk passed with JDK v1.8.0_66 {color} |
| {color:green}+1{color} | {color:green} javadoc {color} | {color:green} 0m 16s {color} | {color:green} trunk passed with JDK v1.7.0_91 {color} |
| {color:green}+1{color} | {color:green} mvninstall {color} | {color:green} 0m 14s {color} | {color:green} the patch passed {color} |
| {color:green}+1{color} | {color:green} compile {color} | {color:green} 0m 10s {color} | {color:green} the patch passed with JDK v1.8.0_66 {color} |
| {color:green}+1{color} | {color:green} javac {color} | {color:green} 0m 10s {color} | {color:green} the patch passed {color} |
| {color:green}+1{color} | {color:green} compile {color} | {color:green} 0m 11s {color} | {color:green} the patch passed with JDK v1.7.0_91 {color} |
| {color:green}+1{color} | {color:green} javac {color} | {color:green} 0m 11s {color} | {color:green} the patch passed {color} |
| {color:red}-1{color} | {color:red} checkstyle {color} | {color:red} 0m 10s {color} | {color:red} hadoop-tools/hadoop-aws: patch generated 2 new + 35 unchanged - 0 fixed = 37 total (was 35) {color} |
| {color:green}+1{color} | {color:green} mvnsite {color} | {color:green} 0m 17s {color} | {color:green} the patch passed {color} |
| {color:green}+1{color} | {color:green} mvneclipse {color} | {color:green} 0m 11s {color} | {color:green} the patch passed {color} |
| {color:red}-1{color} | {color:red} whitespace {color} | {color:red} 0m 0s {color} | {color:red} The patch has 1 line(s) that end in whitespace. Use git apply --whitespace=fix. {color} |
| {color:green}+1{color} | {color:green} findbugs {color} | {color:green} 0m 41s {color} | {color:green} the patch passed {color} |
| {color:green}+1{color} | {color:green} javadoc {color} | {color:green} 0m 11s {color} | {color:green} the patch passed with JDK v1.8.0_66 {color} |
| {color:green}+1{color} | {color:green} javadoc {color} | {color:green} 0m 13s {color} | {color:green} the patch passed with JDK v1.7.0_91 {color} |
| {color:green}+1{color} | {color:green} unit {color} | {color:green} 0m 9s {color} | {color:green} hadoop-aws in the patch passed with JDK v1.8.0_66. {color} |
| {color:green}+1{color} | {color:green} unit {color} | {color:green} 0m 12s {color} | {color:green} hadoop-aws in the patch passed with JDK v1.7.0_91. {color} |
| {color:green}+1{color} | {color:green} asflicense {color} | {color:green} 0m 17s {color} | {color:green} Patch does not generate ASF License warnings. {color} |
| {color:black}{color} | {color:black} {color} | {color:black} 14m 7s {color} | {color:black} {color} |
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|| Subsystem || Report/Notes ||
| Docker | Image:yetus/hadoop:0ca8df7 |
| JIRA Patch URL | https://issues.apache.org/jira/secure/attachment/12784120/HADOOP-12739.patch |
| JIRA Issue | HADOOP-12739 |
| Optional Tests | asflicense compile javac javadoc mvninstall mvnsite unit findbugs checkstyle |
| uname | Linux 260ba1b14c51 3.13.0-36-lowlatency #63-Ubuntu SMP PREEMPT Wed Sep 3 21:56:12 UTC 2014 x86_64 x86_64 x86_64 GNU/Linux |
| Build tool | maven |
| Personality | /testptch/hadoop/patchprocess/precommit/personality/provided.sh |
| git revision | trunk / 56a0c17 |
| Default Java | 1.7.0_91 |
| Multi-JDK versions | /usr/lib/jvm/java-8-oracle:1.8.0_66 /usr/lib/jvm/java-7-openjdk-amd64:1.7.0_91 |
| findbugs | v3.0.0 |
| checkstyle | https://builds.apache.org/job/PreCommit-HADOOP-Build/8463/artifact/patchprocess/diff-checkstyle-hadoop-tools_hadoop-aws.txt |
| whitespace | https://builds.apache.org/job/PreCommit-HADOOP-Build/8463/artifact/patchprocess/whitespace-eol.txt |
| JDK v1.7.0_91 Test Results | https://builds.apache.org/job/PreCommit-HADOOP-Build/8463/testReport/ |
| modules | C: hadoop-tools/hadoop-aws U: hadoop-tools/hadoop-aws |
| Max memory used | 76MB |
| Powered by | Apache Yetus 0.2.0-SNAPSHOT http://yetus.apache.org |
| Console output | https://builds.apache.org/job/PreCommit-HADOOP-Build/8463/console |
This message was automatically generated.
> Deadlock with OrcInputFormat split threads and Jets3t connections, since, NativeS3FileSystem does not release connections with seek()
> -------------------------------------------------------------------------------------------------------------------------------------
>
> Key: HADOOP-12739
> URL: https://issues.apache.org/jira/browse/HADOOP-12739
> Project: Hadoop Common
> Issue Type: Bug
> Affects Versions: 2.6.0, 2.7.0
> Reporter: Pavan Srinivas
> Assignee: Pavan Srinivas
> Attachments: 11600.txt, HADOOP-12739.patch
>
>
> Recently, we came across a deadlock situation with OrcInputFormat while computing splits.
> - In Orc, for split computation, it needs file listing and file sizes.
> - Multiple threads are invoked for listing the files and if the data is located in S3, NativeS3FileSystem is used.
> - NativeS3FileSystem in turn uses JetS3t Lib to talk to AWS and maintain connection pool.
> - When # of threads from OrcInputFormat exceeds JetS3t's max # of connections, a deadlock occurs. stack trace:
> {code}
> "ORC_GET_SPLITS #5" daemon prio=10 tid=0x00007f8568108800 nid=0x1e29 in Object.wait() [0x00007f8565696000]
> java.lang.Thread.State: WAITING (on object monitor)
> at java.lang.Object.wait(Native Method)
> - waiting on <0x00000000df9ed450> (a org.apache.commons.httpclient.MultiThreadedHttpConnectionManager$ConnectionPool)
> at org.apache.commons.httpclient.MultiThreadedHttpConnectionManager.doGetConnection(MultiThreadedHttpConnectionManager.java:518)
> - locked <0x00000000df9ed450> (a org.apache.commons.httpclient.MultiThreadedHttpConnectionManager$ConnectionPool)
> at org.apache.commons.httpclient.MultiThreadedHttpConnectionManager.getConnectionWithTimeout(MultiThreadedHttpConnectionManager.java:416)
> at org.apache.commons.httpclient.HttpMethodDirector.executeMethod(HttpMethodDirector.java:153)
> at org.apache.commons.httpclient.HttpClient.executeMethod(HttpClient.java:397)
> at org.apache.commons.httpclient.HttpClient.executeMethod(HttpClient.java:323)
> at org.jets3t.service.impl.rest.httpclient.RestStorageService.performRequest(RestStorageService.java:370)
> at org.jets3t.service.impl.rest.httpclient.RestStorageService.performRestGet(RestStorageService.java:929)
> at org.jets3t.service.impl.rest.httpclient.RestStorageService.getObjectImpl(RestStorageService.java:2007)
> at org.jets3t.service.impl.rest.httpclient.RestStorageService.getObjectImpl(RestStorageService.java:1944)
> at org.jets3t.service.S3Service.getObject(S3Service.java:2625)
> at org.apache.hadoop.fs.s3native.Jets3tNativeFileSystemStore.retrieve(Jets3tNativeFileSystemStore.java:254)
> at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
> at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
> at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
> at java.lang.reflect.Method.invoke(Method.java:606)
> at org.apache.hadoop.io.retry.RetryInvocationHandler.invokeMethod(RetryInvocationHandler.java:187)
> at org.apache.hadoop.io.retry.RetryInvocationHandler.invoke(RetryInvocationHandler.java:102)
> at org.apache.hadoop.fs.s3native.$Proxy12.retrieve(Unknown Source)
> at org.apache.hadoop.fs.s3native.NativeS3FileSystem$NativeS3FsInputStream.reopen(NativeS3FileSystem.java:269)
> - locked <0x00000000db01eec0> (a org.apache.hadoop.fs.s3native.NativeS3FileSystem$NativeS3FsInputStream)
> at org.apache.hadoop.fs.s3native.NativeS3FileSystem$NativeS3FsInputStream.seek(NativeS3FileSystem.java:258)
> - locked <0x00000000db01eec0> (a org.apache.hadoop.fs.s3native.NativeS3FileSystem$NativeS3FsInputStream)
> at org.apache.hadoop.fs.BufferedFSInputStream.seek(BufferedFSInputStream.java:98)
> at org.apache.hadoop.fs.FSDataInputStream.seek(FSDataInputStream.java:63)
> - locked <0x00000000db01ee70> (a org.apache.hadoop.fs.FSDataInputStream)
> at org.apache.hadoop.hive.ql.io.orc.ReaderImpl.extractMetaInfoFromFooter(ReaderImpl.java:329)
> at org.apache.hadoop.hive.ql.io.orc.ReaderImpl.<init>(ReaderImpl.java:292)
> at org.apache.hadoop.hive.ql.io.orc.OrcFile.createReader(OrcFile.java:197)
> at org.apache.hadoop.hive.ql.io.orc.OrcInputFormat$SplitGenerator.populateAndCacheStripeDetails(OrcInputFormat.java:857)
> at org.apache.hadoop.hive.ql.io.orc.OrcInputFormat$SplitGenerator.run(OrcInputFormat.java:747)
> at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> at java.lang.Thread.run(Thread.java:744)
> Locked ownable synchronizers:
> - <0x00000000dae7bcb8> (a java.util.concurrent.ThreadPoolExecutor$Worker)
> {code}
> A complete *jstack* dump of the process is attached with.
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