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From "Vitaly Tsvetkov (JIRA)" <j...@apache.org>
Subject [jira] [Updated] (GIRAPH-1026) New Out-of-core mechanism does not work
Date Tue, 25 Aug 2015 06:16:46 GMT

     [ https://issues.apache.org/jira/browse/GIRAPH-1026?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel
]

Vitaly Tsvetkov updated GIRAPH-1026:
------------------------------------
    Attachment: LPAComputation.txt

> New Out-of-core mechanism does not work
> ---------------------------------------
>
>                 Key: GIRAPH-1026
>                 URL: https://issues.apache.org/jira/browse/GIRAPH-1026
>             Project: Giraph
>          Issue Type: Bug
>    Affects Versions: 1.2.0-SNAPSHOT
>            Reporter: Max Garmash
>            Assignee: Hassan Eslami
>         Attachments: LPAComputation.txt
>
>
> After releasing new OOC mechanism we tried to test it on our data and it failed.
> Our environment:
> 4x (CPU 6 cores / 12 threads, RAM 64GB) 
> We can successfully process about 75 millions of vertices. 
> With 100-120M vertices it fails like this:
> {noformat}
> 2015-08-04 12:35:21,000 INFO  [AMRM Callback Handler Thread] yarn.GiraphApplicationMaster
(GiraphApplicationMaster.java:onContainersCompleted(574)) - Got container status for containerID=container_1438068521412_0193_01_000005,
state=COMPLETE, exitStatus=-104, diagnostics=Container [pid=6700,containerID=container_1438068521412_0193_01_000005]
is running beyond physical memory limits. Current usage: 20.3 GB of 20 GB physical memory
used; 22.4 GB of 42 GB virtual memory used. Killing container.
> Dump of the process-tree for container_1438068521412_0193_01_000005 :
> 	|- PID PPID PGRPID SESSID CMD_NAME USER_MODE_TIME(MILLIS) SYSTEM_TIME(MILLIS) VMEM_USAGE(BYTES)
RSSMEM_USAGE(PAGES) FULL_CMD_LINE
> 	|- 6704 6700 6700 6700 (java) 78760 20733 24033841152 5317812 java -Xmx20480M -Xms20480M
-cp .:${CLASSPATH}:./*:$HADOOP_CLIENT_CONF_DIR:$HADOOP_CONF_DIR:$HADOOP_COMMON_HOME/*:$HADOOP_COMMON_HOME/lib/*:$HADOOP_HDFS_HOME/*:$HADOOP_HDFS_HOME/lib/*:$HADOOP_YARN_HOME/*:$HADOOP_YARN_HOME/lib/*:$HADOOP_MAPRED_HOME/*:$HADOOP_MAPRED_HOME/lib/*:$MR2_CLASSPATH:./*:/etc/hadoop/conf.cloudera.yarn:/run/cloudera-scm-agent/process/264-yarn-NODEMANAGER:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop/lib/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-hdfs/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-hdfs/lib/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-yarn/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-yarn/lib/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-mapreduce/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-mapreduce/lib/*::./*:/etc/hadoop/conf.cloudera.yarn:/run/cloudera-scm-agent/process/264-yarn-NODEMANAGER:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop/lib/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-hdfs/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-hdfs/lib/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-yarn/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-yarn/lib/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-mapreduce/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-mapreduce/lib/*::./*:/etc/hadoop/conf.cloudera.yarn:/run/cloudera-scm-agent/process/264-yarn-NODEMANAGER:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop/lib/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-hdfs/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-hdfs/lib/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-yarn/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-yarn/lib/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-mapreduce/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-mapreduce/lib/*:
org.apache.giraph.yarn.GiraphYarnTask 1438068521412 193 5 1 
> 	|- 6700 6698 6700 6700 (bash) 0 0 14376960 433 /bin/bash -c java -Xmx20480M -Xms20480M
-cp .:${CLASSPATH}:./*:$HADOOP_CLIENT_CONF_DIR:$HADOOP_CONF_DIR:$HADOOP_COMMON_HOME/*:$HADOOP_COMMON_HOME/lib/*:$HADOOP_HDFS_HOME/*:$HADOOP_HDFS_HOME/lib/*:$HADOOP_YARN_HOME/*:$HADOOP_YARN_HOME/lib/*:$HADOOP_MAPRED_HOME/*:$HADOOP_MAPRED_HOME/lib/*:$MR2_CLASSPATH:./*:/etc/hadoop/conf.cloudera.yarn:/run/cloudera-scm-agent/process/264-yarn-NODEMANAGER:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop/lib/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-hdfs/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-hdfs/lib/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-yarn/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-yarn/lib/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-mapreduce/*:/opt/cloudera/parcels/CDH-5.4.4-1.cdh5.4.4.p0.4/lib/hadoop-mapreduce/lib/*:
org.apache.giraph.yarn.GiraphYarnTask 1438068521412 193 5 1 1>/var/log/hadoop-yarn/container/application_1438068521412_0193/container_1438068521412_0193_01_000005/task-5-stdout.log
2>/var/log/hadoop-yarn/container/application_1438068521412_0193/container_1438068521412_0193_01_000005/task-5-stderr.log
 
> Container killed on request. Exit code is 143
> Container exited with a non-zero exit code 143
> {noformat}
> Logs from container
> {noformat}
> 2015-08-04 12:34:51,258 INFO  [netty-server-worker-4] handler.RequestDecoder (RequestDecoder.java:channelRead(74))
- decode: Server window metrics MBytes/sec received = 12.5315, MBytesReceived = 380.217, ave
received req MBytes = 0.007, secs waited = 30.34
> 2015-08-04 12:35:16,258 INFO  [check-memory] ooc.CheckMemoryCallable (CheckMemoryCallable.java:call(221))
- call: Memory is very limited now. Calling GC manually. freeMemory = 924.27MB
> {noformat}
> We are running our job like this:
> {noformat}
> hadoop jar giraph-examples-1.2.0-SNAPSHOT-for-hadoop-2.6.0-cdh5.4.4-jar-with-dependencies.jar
\
>  org.apache.giraph.GiraphRunner \
>  -Dgiraph.yarn.task.heap.mb=20480 \
>  -Dgiraph.isStaticGraph=true \
>  -Dgiraph.useOutOfCoreGraph=true \
>  -Dgiraph.logLevel=info \
>  -Dgiraph.weightedPageRank.superstepCount=5 \
>  ru.isys.WeightedPageRankComputation \
>  -vif ru.isys.CrawlerInputFormat \
>  -vip /tmp/bigdata/input \
>  -vof org.apache.giraph.io.formats.IdWithValueTextOutputFormat \
>  -op /tmp/giraph \
>  -w 6 \
>  -yj giraph-examples-1.2.0-SNAPSHOT-for-hadoop-2.6.0-cdh5.4.4-jar-with-dependencies.jar
> {noformat}



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