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https://issues.apache.org/jira/browse/FLINK-15906?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=17230365#comment-17230365
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Xintong Song commented on FLINK-15906:
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Hi [~清月],
If the problem does not happen frequently, I would suggest to first try
configure a larger JVM overhead memory size. The configuration options are
`taskmanager.memory.jvm-overhead.[min|max|fraction]`.
https://ci.apache.org/projects/flink/flink-docs-release-1.11/ops/memory/mem_setup.html#capped-fractionated-components
> physical memory exceeded causing being killed by yarn
> -----------------------------------------------------
>
> Key: FLINK-15906
> URL: https://issues.apache.org/jira/browse/FLINK-15906
> Project: Flink
> Issue Type: Bug
> Components: Deployment / YARN
> Reporter: liupengcheng
> Priority: Major
>
> Recently, we encoutered this issue when testing TPCDS query with 100g data.
> I first meet this issue when I only set the
> `taskmanager.memory.total-process.size` to `4g` with `-tm` option. Then I try
> to increase the jvmOverhead size with following arguments, but still failed.
> {code:java}
> taskmanager.memory.jvm-overhead.min: 640m
> taskmanager.memory.jvm-metaspace: 128m
> taskmanager.memory.task.heap.size: 1408m
> taskmanager.memory.framework.heap.size: 128m
> taskmanager.memory.framework.off-heap.size: 128m
> taskmanager.memory.managed.size: 1408m
> taskmanager.memory.shuffle.max: 256m
> {code}
> {code:java}
> java.lang.Exception: [2020-02-05 11:31:32.345]Container
> [pid=101677,containerID=container_e08_1578903621081_4785_01_000051] is
> running 46342144B beyond the 'PHYSICAL' memory limit. Current usage: 4.04 GB
> of 4 GB physical memory used; 17.68 GB of 40 GB virtual memory used. Killing
> container.java.lang.Exception: [2020-02-05 11:31:32.345]Container
> [pid=101677,containerID=container_e08_1578903621081_4785_01_000051] is
> running 46342144B beyond the 'PHYSICAL' memory limit. Current usage: 4.04 GB
> of 4 GB physical memory used; 17.68 GB of 40 GB virtual memory used. Killing
> container.Dump of the process-tree for
> container_e08_1578903621081_4785_01_000051 : |- PID PPID PGRPID SESSID
> CMD_NAME USER_MODE_TIME(MILLIS) SYSTEM_TIME(MILLIS) VMEM_USAGE(BYTES)
> RSSMEM_USAGE(PAGES) FULL_CMD_LINE |- 101938 101677 101677 101677 (java) 25762
> 3571 18867417088 1059157 /opt/soft/openjdk1.8.0/bin/java
> -Dhadoop.root.logfile=syslog -Xmx1610612736 -Xms1610612736
> -XX:MaxDirectMemorySize=402653184 -XX:MaxMetaspaceSize=134217728
> -Dlog.file=/home/work/hdd5/yarn/zjyprc-analysis/nodemanager/application_1578903621081_4785/container_e08_1578903621081_4785_01_000051/taskmanager.log
> -Dlog4j.configuration=file:./log4j.properties
> org.apache.flink.yarn.YarnTaskExecutorRunner -D
> taskmanager.memory.shuffle.max=268435456b -D
> taskmanager.memory.framework.off-heap.size=134217728b -D
> taskmanager.memory.framework.heap.size=134217728b -D
> taskmanager.memory.managed.size=1476395008b -D taskmanager.cpu.cores=1.0 -D
> taskmanager.memory.task.heap.size=1476395008b -D
> taskmanager.memory.task.off-heap.size=0b -D
> taskmanager.memory.shuffle.min=268435456b --configDir .
> -Djobmanager.rpc.address=zjy-hadoop-prc-st2805.bj -Dweb.port=0
> -Dweb.tmpdir=/tmp/flink-web-4bf6cd3a-a6e1-4b46-b140-b8ac7bdffbeb
> -Djobmanager.rpc.port=36769 -Dtaskmanager.memory.managed.size=1476395008b
> -Drest.address=zjy-hadoop-prc-st2805.bj |- 101677 101671 101677 101677 (bash)
> 1 1 118030336 733 /bin/bash -c /opt/soft/openjdk1.8.0/bin/java
> -Dhadoop.root.logfile=syslog -Xmx1610612736 -Xms1610612736
> -XX:MaxDirectMemorySize=402653184 -XX:MaxMetaspaceSize=134217728
> -Dlog.file=/home/work/hdd5/yarn/zjyprc-analysis/nodemanager/application_1578903621081_4785/container_e08_1578903621081_4785_01_000051/taskmanager.log
> -Dlog4j.configuration=file:./log4j.properties
> org.apache.flink.yarn.YarnTaskExecutorRunner -D
> taskmanager.memory.shuffle.max=268435456b -D
> taskmanager.memory.framework.off-heap.size=134217728b -D
> taskmanager.memory.framework.heap.size=134217728b -D
> taskmanager.memory.managed.size=1476395008b -D taskmanager.cpu.cores=1.0 -D
> taskmanager.memory.task.heap.size=1476395008b -D
> taskmanager.memory.task.off-heap.size=0b -D
> taskmanager.memory.shuffle.min=268435456b --configDir .
> -Djobmanager.rpc.address=zjy-hadoop-prc-st2805.bj -Dweb.port=0
> -Dweb.tmpdir=/tmp/flink-web-4bf6cd3a-a6e1-4b46-b140-b8ac7bdffbeb
> -Djobmanager.rpc.port=36769 -Dtaskmanager.memory.managed.size=1476395008b
> -Drest.address=zjy-hadoop-prc-st2805.bj 1>
> /home/work/hdd5/yarn/zjyprc-analysis/nodemanager/application_1578903621081_4785/container_e08_1578903621081_4785_01_000051/taskmanager.out
> 2>
> /home/work/hdd5/yarn/zjyprc-analysis/nodemanager/application_1578903621081_4785/container_e08_1578903621081_4785_01_000051/taskmanager.err
> {code}
> I suspect there are some leaks or unexpected offheap memory usage.
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