Cluster gets stuck after full re-index

Elastic Stack Elasticsearch
1

Hello,

we recently moved our ES cluster from dedicated hardware to AWS instances,
they have less memory available, but use SSDs for the ES data directory. We
kept JVM (1.7.0_17) and ES (0.90.9) version exactly the same. On the new
hardware, after running a full re-index (creating a new index, pointing an
alias to the new and one alias to the old index, sending realtime updates
to both aliases and running a script to fill up the new index) our cluster
gets stuck.

10 minutes after the re-index finishes and we move both aliases to the new
index, ES stops answering any search or index queries, no errors in the
logs apart from it not answering queries anymore:

org.elasticsearch.common.util.concurrent.EsRejectedExecutionException:
rejected execution (queue capacity 1000) on
org.elasticsearch.action.search.type.TransportSearchTypeAction$BaseAsyncAction$4@172018e5

CPU load is low, it doesn't look like it's doing anything expensive. A
request to hot_threads times out. I've put the output from jstack and jmap
here:

We tried upgrading to 0.90.13, since the changelog mentioned a problem with
infinite loops, but same behavior. We're planning to upgrade to a more
recent version of ES soon, but it'll take a bit to fully test that.

Any ideas what could be causing this?

thanks,
Florian

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2

How does your heap look during all this?

Regards,
Mark Walkom

Infrastructure Engineer
Campaign Monitor
email: markw@campaignmonitor.com
web: www.campaignmonitor.com

On 3 June 2014 20:14, Florian Munz surf@theflow.de wrote:

Hello,

we recently moved our ES cluster from dedicated hardware to AWS instances,
they have less memory available, but use SSDs for the ES data directory. We
kept JVM (1.7.0_17) and ES (0.90.9) version exactly the same. On the new
hardware, after running a full re-index (creating a new index, pointing an
alias to the new and one alias to the old index, sending realtime updates
to both aliases and running a script to fill up the new index) our cluster
gets stuck.

10 minutes after the re-index finishes and we move both aliases to the new
index, ES stops answering any search or index queries, no errors in the
logs apart from it not answering queries anymore:

org.elasticsearch.common.util.concurrent.EsRejectedExecutionException:
rejected execution (queue capacity 1000) on
org.elasticsearch.action.search.type.TransportSearchTypeAction$BaseAsyncAction$4@172018e5

CPU load is low, it doesn't look like it's doing anything expensive. A
request to hot_threads times out. I've put the output from jstack and jmap
here:

ES cluster stuck · GitHub

We tried upgrading to 0.90.13, since the changelog mentioned a problem
with infinite loops, but same behavior. We're planning to upgrade to a more
recent version of ES soon, but it'll take a bit to fully test that.

Any ideas what could be causing this?

thanks,
Florian

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3

Other than the jmap -heap I didn't manage to look more specifically into it:

The same process runs fine on much smaller machines in our staging
environment, without the live traffic, of course.

Anything particular I should run that would give more insights?

Cheers,
Florian

On Tuesday, June 3, 2014 12:21:32 PM UTC+2, Mark Walkom wrote:

How does your heap look during all this?

Regards,
Mark Walkom

Infrastructure Engineer
Campaign Monitor
email: ma...@campaignmonitor.com <javascript:>
web: www.campaignmonitor.com

On 3 June 2014 20:14, Florian Munz <su...@theflow.de <javascript:>> wrote:

Hello,

we recently moved our ES cluster from dedicated hardware to AWS
instances, they have less memory available, but use SSDs for the ES data
directory. We kept JVM (1.7.0_17) and ES (0.90.9) version exactly the same.
On the new hardware, after running a full re-index (creating a new index,
pointing an alias to the new and one alias to the old index, sending
realtime updates to both aliases and running a script to fill up the new
index) our cluster gets stuck.

10 minutes after the re-index finishes and we move both aliases to the
new index, ES stops answering any search or index queries, no errors in the
logs apart from it not answering queries anymore:

org.elasticsearch.common.util.concurrent.EsRejectedExecutionException:
rejected execution (queue capacity 1000) on
org.elasticsearch.action.search.type.TransportSearchTypeAction$BaseAsyncAction$4@172018e5

CPU load is low, it doesn't look like it's doing anything expensive. A
request to hot_threads times out. I've put the output from jstack and jmap
here:

ES cluster stuck · GitHub

We tried upgrading to 0.90.13, since the changelog mentioned a problem
with infinite loops, but same behavior. We're planning to upgrade to a more
recent version of ES soon, but it'll take a bit to fully test that.

Any ideas what could be causing this?

thanks,
Florian

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4

Am I reading that right, you're basically at 100% heap usage? If that is
the case then it'd be GC that's killing you.

Did you add more nodes when you moved to AWS or do you have the same number?

Regards,
Mark Walkom

Infrastructure Engineer
Campaign Monitor
email: markw@campaignmonitor.com
web: www.campaignmonitor.com

On 3 June 2014 20:27, Florian Munz surf@theflow.de wrote:

Other than the jmap -heap I didn't manage to look more specifically into
it:

ES cluster stuck · GitHub

The same process runs fine on much smaller machines in our staging
environment, without the live traffic, of course.

Anything particular I should run that would give more insights?

Cheers,
Florian

On Tuesday, June 3, 2014 12:21:32 PM UTC+2, Mark Walkom wrote:

How does your heap look during all this?

Regards,
Mark Walkom

Infrastructure Engineer
Campaign Monitor
email: ma...@campaignmonitor.com
web: www.campaignmonitor.com

On 3 June 2014 20:14, Florian Munz su...@theflow.de wrote:

Hello,

we recently moved our ES cluster from dedicated hardware to AWS
instances, they have less memory available, but use SSDs for the ES data
directory. We kept JVM (1.7.0_17) and ES (0.90.9) version exactly the same.
On the new hardware, after running a full re-index (creating a new index,
pointing an alias to the new and one alias to the old index, sending
realtime updates to both aliases and running a script to fill up the new
index) our cluster gets stuck.

10 minutes after the re-index finishes and we move both aliases to the
new index, ES stops answering any search or index queries, no errors in the
logs apart from it not answering queries anymore:

org.elasticsearch.common.util.concurrent.EsRejectedExecutionException:
rejected execution (queue capacity 1000) on org.elasticsearch.action.
search.type.TransportSearchTypeAction$BaseAsyncAction$4@172018e5

CPU load is low, it doesn't look like it's doing anything expensive. A
request to hot_threads times out. I've put the output from jstack and jmap
here:

ES cluster stuck · GitHub

We tried upgrading to 0.90.13, since the changelog mentioned a problem
with infinite loops, but same behavior. We're planning to upgrade to a more
recent version of ES soon, but it'll take a bit to fully test that.

Any ideas what could be causing this?

thanks,
Florian

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5

I don't see any signs of GC in the logs or somewhere else, shouldn't
there be high CPU usage in that case?

We moved from 4 to 2 nodes and from 2 to 1 number of replicas.

Cheers,
Florian

On 03.06.14 12:36, Mark Walkom wrote:

Am I reading that right, you're basically at 100% heap usage? If that is
the case then it'd be GC that's killing you.

Did you add more nodes when you moved to AWS or do you have the same number?

Regards,
Mark Walkom

Infrastructure Engineer
Campaign Monitor
email: markw@campaignmonitor.com mailto:markw@campaignmonitor.com
web: www.campaignmonitor.com http://www.campaignmonitor.com

On 3 June 2014 20:27, Florian Munz <surf@theflow.de
mailto:surf@theflow.de> wrote:

Other than the jmap -heap I didn't manage to look more specifically
into it:

https://gist.github.com/theflow/b983d512ea344545f7f6#file-jmap

The same process runs fine on much smaller machines in our staging
environment, without the live traffic, of course.

Anything particular I should run that would give more insights?


Cheers,
Florian


On Tuesday, June 3, 2014 12:21:32 PM UTC+2, Mark Walkom wrote:

    How does your heap look during all this?

    Regards,
    Mark Walkom

    Infrastructure Engineer
    Campaign Monitor
    email: ma...@campaignmonitor.com
    web: www.campaignmonitor.com <http://www.campaignmonitor.com>


    On 3 June 2014 20:14, Florian Munz <su...@theflow.de> wrote:

        Hello,

        we recently moved our ES cluster from dedicated hardware to
        AWS instances, they have less memory available, but use SSDs
        for the ES data directory. We kept JVM (1.7.0_17) and ES
        (0.90.9) version exactly the same. On the new hardware,
        after running a full re-index (creating a new index,
        pointing an alias to the new and one alias to the old index,
        sending realtime updates to both aliases and running a
        script to fill up the new index) our cluster gets stuck.

        10 minutes after the re-index finishes and we move both
        aliases to the new index, ES stops answering any search or
        index queries, no errors in the logs apart from it not
        answering queries anymore:

        org.elasticsearch.common.util.__concurrent.__EsRejectedExecutionException:
        rejected execution (queue capacity 1000) on
        org.elasticsearch.action.__search.type.__TransportSearchTypeAction$__BaseAsyncAction$4@172018e5

        CPU load is low, it doesn't look like it's doing anything
        expensive. A request to hot_threads times out. I've put the
        output from jstack and jmap here:

        https://gist.github.com/__theflow/b983d512ea344545f7f6
        <https://gist.github.com/theflow/b983d512ea344545f7f6>

        We tried upgrading to 0.90.13, since the changelog mentioned
        a problem with infinite loops, but same behavior. We're
        planning to upgrade to a more recent version of ES soon, but
        it'll take a bit to fully test that.


        Any ideas what could be causing this?


        thanks,
        Florian

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6

Many concurrent costly operations (range queries or faceting when I/O ops
are required, segment merges, shard allocations etc) are known to starve ES
out of threads or processing power, and this is what you are experiencing -
no threads are capable of taking your requests.

Immediate solution is to run a master-only node (node.data = false) so you
have one node that acts as master and cluster coordinator that is known to
never starve out of system resources. Even running this node side-by-side
on the same server as one of the data nodes can protect you as it doesn't
have the same memory requirements etc as a data node.

Finally, there has been (and still is) a lot of work put into this so I
strongly recommend upgrading to the latest (currently it is 1.2.1).

--

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Author of RavenDB in Action http://manning.com/synhershko/

On Tue, Jun 3, 2014 at 1:14 PM, Florian Munz surf@theflow.de wrote:

Hello,

we recently moved our ES cluster from dedicated hardware to AWS instances,
they have less memory available, but use SSDs for the ES data directory. We
kept JVM (1.7.0_17) and ES (0.90.9) version exactly the same. On the new
hardware, after running a full re-index (creating a new index, pointing an
alias to the new and one alias to the old index, sending realtime updates
to both aliases and running a script to fill up the new index) our cluster
gets stuck.

10 minutes after the re-index finishes and we move both aliases to the new
index, ES stops answering any search or index queries, no errors in the
logs apart from it not answering queries anymore:

org.elasticsearch.common.util.concurrent.EsRejectedExecutionException:
rejected execution (queue capacity 1000) on
org.elasticsearch.action.search.type.TransportSearchTypeAction$BaseAsyncAction$4@172018e5

CPU load is low, it doesn't look like it's doing anything expensive. A
request to hot_threads times out. I've put the output from jstack and jmap
here:

ES cluster stuck · GitHub

We tried upgrading to 0.90.13, since the changelog mentioned a problem
with infinite loops, but same behavior. We're planning to upgrade to a more
recent version of ES soon, but it'll take a bit to fully test that.

Any ideas what could be causing this?

thanks,
Florian

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7

If you're halved your node count and also reduced the amount of RAM, then
you're probably running into GC problems.

Install something like elastichq or marvel, and then check what is
happening on a cluster and node level.

Regards,
Mark Walkom

Infrastructure Engineer
Campaign Monitor
email: markw@campaignmonitor.com
web: www.campaignmonitor.com

On 5 June 2014 07:18, Florian Munz surf@theflow.de wrote:

I don't see any signs of GC in the logs or somewhere else, shouldn't there
be high CPU usage in that case?

We moved from 4 to 2 nodes and from 2 to 1 number of replicas.

Cheers,
Florian

On 03.06.14 12:36, Mark Walkom wrote:

Am I reading that right, you're basically at 100% heap usage? If that is
the case then it'd be GC that's killing you.

Did you add more nodes when you moved to AWS or do you have the same
number?

Regards,
Mark Walkom

Infrastructure Engineer
Campaign Monitor
email: markw@campaignmonitor.com mailto:markw@campaignmonitor.com
web: www.campaignmonitor.com http://www.campaignmonitor.com

On 3 June 2014 20:27, Florian Munz <surf@theflow.de
mailto:surf@theflow.de> wrote:

Other than the jmap -heap I didn't manage to look more specifically
into it:

https://gist.github.com/theflow/b983d512ea344545f7f6#file-jmap

The same process runs fine on much smaller machines in our staging
environment, without the live traffic, of course.

Anything particular I should run that would give more insights?


Cheers,
Florian


On Tuesday, June 3, 2014 12:21:32 PM UTC+2, Mark Walkom wrote:

    How does your heap look during all this?

    Regards,
    Mark Walkom

    Infrastructure Engineer
    Campaign Monitor
    email: ma...@campaignmonitor.com
    web: www.campaignmonitor.com <http://www.campaignmonitor.com>


    On 3 June 2014 20:14, Florian Munz <su...@theflow.de> wrote:

        Hello,

        we recently moved our ES cluster from dedicated hardware to
        AWS instances, they have less memory available, but use SSDs
        for the ES data directory. We kept JVM (1.7.0_17) and ES
        (0.90.9) version exactly the same. On the new hardware,
        after running a full re-index (creating a new index,
        pointing an alias to the new and one alias to the old index,
        sending realtime updates to both aliases and running a
        script to fill up the new index) our cluster gets stuck.

        10 minutes after the re-index finishes and we move both
        aliases to the new index, ES stops answering any search or
        index queries, no errors in the logs apart from it not
        answering queries anymore:

        org.elasticsearch.common.util.__concurrent.__

EsRejectedExecutionException:
rejected execution (queue capacity 1000) on
org.elasticsearch.action.search.type.
TransportSearchTypeAction$__BaseAsyncAction$4@172018e5

        CPU load is low, it doesn't look like it's doing anything
        expensive. A request to hot_threads times out. I've put the
        output from jstack and jmap here:

        https://gist.github.com/__theflow/b983d512ea344545f7f6
        <https://gist.github.com/theflow/b983d512ea344545f7f6>

        We tried upgrading to 0.90.13, since the changelog mentioned
        a problem with infinite loops, but same behavior. We're
        planning to upgrade to a more recent version of ES soon, but
        it'll take a bit to fully test that.


        Any ideas what could be causing this?


        thanks,
        Florian

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