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<channel>
    <title>MongoDB Jira</title>
    <link>https://jira.mongodb.org</link>
    <description>This file is an XML representation of an issue</description>
    <language>en-us</language>    <build-info>
        <version>9.7.1</version>
        <build-number>970001</build-number>
        <build-date>13-04-2023</build-date>
    </build-info>


<item>
            <title>[SERVER-22255] mongod with WT killed by OOM, large journal files present</title>
                <link>https://jira.mongodb.org/browse/SERVER-22255</link>
                <project id="10000" key="SERVER">Core Server</project>
                    <description>&lt;p&gt;Hi,&lt;/p&gt;

&lt;p&gt;We had an issue yesterday on one of our cluster composed to three shards (1 primary / 2 secondaries / 2 arbiters).&lt;br/&gt;
MMS show oplog data increased very fast, up to 100gb per hour in only few minutes. All members crashed (OOM), and the shard became unavailable.&lt;br/&gt;
When we tried to restart one instance, it took more than hour, logs only showing :&lt;/p&gt;
&lt;p/&gt;
&lt;div id=&quot;syntaxplugin&quot; class=&quot;syntaxplugin&quot; style=&quot;border: 1px dashed #bbb; border-radius: 5px !important; overflow: auto; max-height: 30em;&quot;&gt;
&lt;table cellspacing=&quot;0&quot; cellpadding=&quot;0&quot; border=&quot;0&quot; width=&quot;100%&quot; style=&quot;font-size: 1em; line-height: 1.4em !important; font-weight: normal; font-style: normal; color: black;&quot;&gt;
		&lt;tbody &gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;  margin-top: 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;2016-01-20T20:44:08.609+0000 I CONTROL  ***** SERVER RESTARTED *****&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;2016-01-20T20:44:08.615+0000 I CONTROL  [initandlisten] MongoDB starting : pid=1 port=27017 dbpath=/data/mongo 64-bit host=db2&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;2016-01-20T20:44:08.615+0000 I CONTROL  [initandlisten] db version v3.0.8&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;2016-01-20T20:44:08.615+0000 I CONTROL  [initandlisten] git version: 83d8cc25e00e42856924d84e220fbe4a839e605d&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;2016-01-20T20:44:08.615+0000 I CONTROL  [initandlisten] build info: Linux ip-10-187-89-126 3.13.0-24-generic #46-Ubuntu SMP Thu Apr 10 19:11:08 UTC 2014 x86_64 BOOST_LIB_VERSION=1_49&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;2016-01-20T20:44:08.615+0000 I CONTROL  [initandlisten] allocator: tcmalloc&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;2016-01-20T20:44:08.615+0000 I CONTROL  [initandlisten] options: { config: &quot;/etc/mongodb.conf&quot;, net: { port: 27017 }, processManagement: { pidFilePath: &quot;/var/run/mongodb.pid&quot; }, replication: { replSet: &quot;rs2&quot; }, storage: { dbPath: &quot;/data/mongo&quot;, engine: &quot;wiredTiger&quot;, wiredTiger: { collectionConfig: { blockCompressor: &quot;zlib&quot; }, engineConfig: { cacheSizeGB: 80 } } }, systemLog: { destination: &quot;file&quot;, logAppend: true, path: &quot;/var/log/mongodb/mongo.log&quot; } }&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;2016-01-20T20:44:08.630+0000 W -        [initandlisten] Detected unclean shutdown - /data/mongo/mongod.lock is not empty.&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;2016-01-20T20:44:08.630+0000 W STORAGE  [initandlisten] Recovering data from the last clean checkpoint.&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   margin-bottom: 10px;  width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;2016-01-20T20:44:08.630+0000 I STORAGE  [initandlisten] wiredtiger_open config: create,cache_size=80G,session_max=20000,eviction=(threads_max=4),statistics=(fast),log=(enabled=true,archive=true,path=journal,compressor=snappy),file_manager=(close_idle_time=100000),checkpoint=(wait=60,log_size=2GB),statistics_log=(wait=0),&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
			&lt;/tbody&gt;
&lt;/table&gt;
&lt;/div&gt;
&lt;p/&gt;

&lt;p&gt;After more than hour at this step, we saw two things : &lt;/p&gt;
&lt;ul&gt;
	&lt;li&gt;Files in the datapath were changed, so something was happening (process wasn&apos;t stuck or crashed)&lt;/li&gt;
	&lt;li&gt;Journal directory  was larger than the database :
&lt;p/&gt;
&lt;div id=&quot;syntaxplugin&quot; class=&quot;syntaxplugin&quot; style=&quot;border: 1px dashed #bbb; border-radius: 5px !important; overflow: auto; max-height: 30em;&quot;&gt;
&lt;table cellspacing=&quot;0&quot; cellpadding=&quot;0&quot; border=&quot;0&quot; width=&quot;100%&quot; style=&quot;font-size: 1em; line-height: 1.4em !important; font-weight: normal; font-style: normal; color: black;&quot;&gt;
		&lt;tbody &gt;
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						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;  margin-top: 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt; # du -sh *&lt;/span&gt;&lt;/pre&gt;
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						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
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						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
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				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;4.0K	WiredTiger.lock&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;4.0K	WiredTiger.turtle&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   margin-bottom: 10px;  width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;68K	WiredTiger.wt&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
			&lt;/tbody&gt;
&lt;/table&gt;
&lt;/div&gt;
&lt;p/&gt;&lt;/li&gt;
&lt;/ul&gt;


&lt;p&gt;Because we don&apos;t know how many times the instances will took to start, we copied all the data directory and removed journal files. Then the instance started correctly and cluster were available again.&lt;/p&gt;

&lt;p&gt;So, here are my questions :&lt;/p&gt;
&lt;ul&gt;
	&lt;li&gt;We don&apos;t find any event in our app which can explain why oplog increased like that. Is there a known issue about that ? Maybe in sharding processes ?&lt;/li&gt;
	&lt;li&gt;As we keep a backup of datadir, before dropping the journal files, is there any way to open/analyze journal, to find what kind of event are inside and find the root cause of our issue ?&lt;/li&gt;
&lt;/ul&gt;



&lt;p&gt;Regards,&lt;br/&gt;
Anthony&lt;/p&gt;
</description>
                <environment></environment>
        <key id="259878">SERVER-22255</key>
            <summary>mongod with WT killed by OOM, large journal files present</summary>
                <type id="1" iconUrl="https://jira.mongodb.org/secure/viewavatar?size=xsmall&amp;avatarId=14703&amp;avatarType=issuetype">Bug</type>
                                            <priority id="3" iconUrl="https://jira.mongodb.org/images/icons/priorities/major.svg">Major - P3</priority>
                        <status id="6" iconUrl="https://jira.mongodb.org/images/icons/statuses/closed.png" description="The issue is considered finished, the resolution is correct. Issues which are closed can be reopened.">Closed</status>
                    <statusCategory id="3" key="done" colorName="success"/>
                                    <resolution id="4">Incomplete</resolution>
                                        <assignee username="-1">Unassigned</assignee>
                                    <reporter username="anthony@sendinblue.com">Anthony Brodard</reporter>
                        <labels>
                    </labels>
                <created>Thu, 21 Jan 2016 13:26:38 +0000</created>
                <updated>Mon, 25 Jan 2016 13:23:06 +0000</updated>
                            <resolved>Mon, 25 Jan 2016 13:23:06 +0000</resolved>
                                    <version>3.0.8</version>
                                                    <component>WiredTiger</component>
                                        <votes>0</votes>
                                    <watches>6</watches>
                                                                                                                <comments>
                            <comment id="1152491" author="ramon.fernandez" created="Mon, 25 Jan 2016 13:21:47 +0000"  >&lt;p&gt;Understood, thanks for letting us know &lt;a href=&quot;https://jira.mongodb.org/secure/ViewProfile.jspa?name=anthony%40sendinblue.com&quot; class=&quot;user-hover&quot; rel=&quot;anthony@sendinblue.com&quot;&gt;anthony@sendinblue.com&lt;/a&gt;. Please let us know if you run into this issue again so we can investigate further.&lt;/p&gt;

&lt;p&gt;Regards,&lt;br/&gt;
Ram&#243;n.&lt;/p&gt;</comment>
                            <comment id="1152426" author="anthony@sendinblue.com" created="Mon, 25 Jan 2016 11:14:11 +0000"  >&lt;p&gt;Hi Ramon,&lt;/p&gt;

&lt;p&gt;Thanks for the quick reply.&lt;br/&gt;
We don&apos;t encounter this problem since reported, and we&apos;re not able to reproduce.&lt;br/&gt;
Upgrading in 3.2.x is not planned. We will reconsider it if the issue come back.&lt;br/&gt;
Also, we checked our mongo configuration last week. A bad shard key was used, inserting all new documents in the same shard and generating lot of empty chunks... Shard key have been modified, and document distribution seems to be better now.&lt;/p&gt;

&lt;p&gt;I think this issue can be closed. I will reopen if needed.&lt;/p&gt;

&lt;p&gt;Regards,&lt;br/&gt;
Anthony Brodard&lt;/p&gt;</comment>
                            <comment id="1150707" author="ramon.fernandez" created="Thu, 21 Jan 2016 23:26:30 +0000"  >&lt;p&gt;&lt;a href=&quot;https://jira.mongodb.org/secure/ViewProfile.jspa?name=anthony%40sendinblue.com&quot; class=&quot;user-hover&quot; rel=&quot;anthony@sendinblue.com&quot;&gt;anthony@sendinblue.com&lt;/a&gt;, a colleague pointed out that deleting 121GB of journal files is equivalent to deleting that much data from your database. The large journal files may have been caused by your servers running too close to capacity &amp;#8211; the data-collection procedure described above (or an upgrade to 3.2.1) will tell us more.&lt;/p&gt;</comment>
                            <comment id="1150095" author="ramon.fernandez" created="Thu, 21 Jan 2016 16:46:47 +0000"  >&lt;p&gt;&lt;a href=&quot;https://jira.mongodb.org/secure/ViewProfile.jspa?name=anthony%40sendinblue.com&quot; class=&quot;user-hover&quot; rel=&quot;anthony@sendinblue.com&quot;&gt;anthony@sendinblue.com&lt;/a&gt;, WiredTiger journal files are removed after a checkpoint completes; the behavior you&apos;re observing suggests that checkpoints may be taking a very long time. This scenario was reported earlier in &lt;a href=&quot;https://jira.mongodb.org/browse/SERVER-22117&quot; title=&quot;WiredTiger journal files not deleted/ Way too many journal files&quot; class=&quot;issue-link&quot; data-issue-key=&quot;SERVER-22117&quot;&gt;&lt;del&gt;SERVER-22117&lt;/del&gt;&lt;/a&gt;, uncovering a bug in WiredTiger that&apos;s being investigated in &lt;a href=&quot;https://jira.mongodb.org/browse/WT-2264&quot; title=&quot;Checkpoints cannot keep up with inserts&quot; class=&quot;issue-link&quot; data-issue-key=&quot;WT-2264&quot;&gt;&lt;del&gt;WT-2264&lt;/del&gt;&lt;/a&gt;.&lt;/p&gt;

&lt;p&gt;The out-of-memory condition is likely a symptom of the above or perhaps something else. My first recommendation would be to upgrade to MongoDB 3.2.1, which includes several improvements in memory management that could help your use case.&lt;/p&gt;

&lt;p&gt;If you do upgrade and the issue appears again please let us know, and we&apos;ll investigate further. If upgrading is not feasible at this time, can you please run the following from a user shell?&lt;/p&gt;

&lt;p/&gt;
&lt;div id=&quot;syntaxplugin&quot; class=&quot;syntaxplugin&quot; style=&quot;border: 1px dashed #bbb; border-radius: 5px !important; overflow: auto; max-height: 30em;&quot;&gt;
&lt;table cellspacing=&quot;0&quot; cellpadding=&quot;0&quot; border=&quot;0&quot; width=&quot;100%&quot; style=&quot;font-size: 1em; line-height: 1.4em !important; font-weight: normal; font-style: normal; color: black;&quot;&gt;
		&lt;tbody &gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;  margin-top: 10px;   width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;mongo --&lt;/span&gt;&lt;span style=&quot;color: #ff1493; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;eval&lt;/span&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt; &lt;/span&gt;&lt;span style=&quot;color: blue; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;&quot;while(true) {print(JSON.stringify(db.serverStatus({tcmalloc:1}))); sleep(1000)}&quot;&lt;/span&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt; &amp;gt;ss.log &amp;amp;&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
				&lt;tr id=&quot;syntaxplugin_code_and_gutter&quot;&gt;
						&lt;td  style=&quot; line-height: 1.4em !important; padding: 0em; vertical-align: top;&quot;&gt;
					&lt;pre style=&quot;font-size: 1em; margin: 0 10px;   margin-bottom: 10px;  width: auto; padding: 0;&quot;&gt;&lt;span style=&quot;color: black; font-family: &apos;Consolas&apos;, &apos;Bitstream Vera Sans Mono&apos;, &apos;Courier New&apos;, Courier, monospace !important;&quot;&gt;iostat -k -t -x 1 &amp;gt;iostat.log &amp;amp;&lt;/span&gt;&lt;/pre&gt;
			&lt;/td&gt;
		&lt;/tr&gt;
			&lt;/tbody&gt;
&lt;/table&gt;
&lt;/div&gt;
&lt;p/&gt;

&lt;p&gt;This will collect data in two files, &lt;tt&gt;ss.log&lt;/tt&gt; and &lt;tt&gt;iostat.log&lt;/tt&gt;. If you run these commands from a server restart until the problem appears again we should be able to determine if you&apos;re indeed running into &lt;a href=&quot;https://jira.mongodb.org/browse/WT-2264&quot; title=&quot;Checkpoints cannot keep up with inserts&quot; class=&quot;issue-link&quot; data-issue-key=&quot;WT-2264&quot;&gt;&lt;del&gt;WT-2264&lt;/del&gt;&lt;/a&gt; or the problem is elsewhere.&lt;/p&gt;

&lt;p&gt;Thanks,&lt;br/&gt;
Ram&#243;n.&lt;/p&gt;</comment>
                    </comments>
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