Unstable cluster performance

9a614c14b7d7bbfd64cb · March 14, 2019, 6:01pm

Hi!

I have an elastic cluster -
1 dedicated master node with 1GB of heap
6 data nodes ( 32 cpu, 31GB heap and about 100GB more for file cache; disk and network io utilization is 5% on all data nodes)

I have two main indices that I'm writing to using filebeat and logstash.

xvd_logs - 120 million documents per day and 300GB of data

{
"index_patterns": ["xvd_logs-*"],
"settings": {
"number_of_shards": 12,
"index": {
"refresh_interval": "10s"}},

wsk_log - 60 million documents per day and 60GB of data

{"order": 1,
"index_patterns": [
"wsk_log-*"
],
"settings": {
"index": {
"highlight": {
"max_analyzed_offset": "30000000"
},
"mapping": {
"total_fields": {
"limit": "10000"
}
},
"refresh_interval": "30s",
"number_of_shards": "12",
"merge": {
"scheduler": {
"max_thread_count": "1"}}}},

Both of these have static mappings that i've set in templates

Bulk indexing writes are piling up on all hosts at the same time. They pile up for 10-30 minutes and then all get indexed at the same time. Then cluster works normally for a few minutes.

curl -s --noproxy "*" -X GET "http://elastic:9200/_cat/tasks?detailed&v" | wc -l

1363

    action                         task_id                         parent_task_id                  type      start_time    timestamp running_time ip           node        description
indices:data/write/bulk        Jffd7IX0RCa-UR228cW2Xw:18951228 -                               transport 1552583715789 17:15:15  6.7m         10.4.4.75    node3   requests[4096], indices[wsk_log-2019.03.14]
indices:data/write/bulk[s]     Jffd7IX0RCa-UR228cW2Xw:18951231 Jffd7IX0RCa-UR228cW2Xw:18951228 transport 1552583715793 17:15:15  6.7m         10.4.4.75    node3   requests[354], index[wsk_log-2019.03.14]
indices:data/write/bulk[s]     xt-LfJPdQPaO7uC-lX7TFw:17591898 Jffd7IX0RCa-UR228cW2Xw:18951231 netty     1552583715816 17:15:15  6.7m         10.100.100.105   node6 requests[354], index[wsk_log-2019.03.14]
indices:data/write/bulk[s][p]  xt-LfJPdQPaO7uC-lX7TFw:17591899 xt-LfJPdQPaO7uC-lX7TFw:17591898 direct    1552583715816 17:15:15  6.7m         10.100.100.105   node6 requests[354], index[wsk_log-2019.03.14]
indices:data/write/bulk        ODJXLTi6SiqylmA-7mi1dA:22685282 -                               transport 1552583716138 17:15:16  6.7m         10.4.4.67    node1   requests[4096], indices[wsk_log-2019.03.14]
indices:data/write/bulk[s]     ODJXLTi6SiqylmA-7mi1dA:22685285 ODJXLTi6SiqylmA-7mi1dA:22685282 transport 1552583716147 17:15:16  6.7m         10.4.4.67    node1   requests[322], index[wsk_log-2019.03.14]
indices:data/write/bulk[s]     xt-LfJPdQPaO7uC-lX7TFw:17591934 ODJXLTi6SiqylmA-7mi1dA:22685285 netty     1552583716162 17:15:16  6.7m         10.100.100.105   node6 requests[322], index[wsk_log-2019.03.14]
indices:data/write/bulk[s][p]  xt-LfJPdQPaO7uC-lX7TFw:17591935 xt-LfJPdQPaO7uC-lX7TFw:17591934 direct    1552583716162 17:15:16  6.7m         10.100.100.105   node6 requests[322], index[wsk_log-2019.03.14]
indices:data/write/bulk        Jffd7IX0RCa-UR228cW2Xw:18951289 -                               transport 1552583716156 17:15:16  6.7m         10.4.4.75    node3   requests[4096], indices[wsk_log-2019.03.14]
indices:data/write/bulk[s]     Jffd7IX0RCa-UR228cW2Xw:18951292 Jffd7IX0RCa-UR228cW2Xw:18951289 transport 1552583716162 17:15:16  6.7m         10.4.4.75    node3   requests[351], index[wsk_log-2019.03.14]
indices:data/write/bulk[s]     xt-LfJPdQPaO7uC-lX7TFw:17591938 Jffd7IX0RCa-UR228cW2Xw:18951292 netty     1552583716178 17:15:16  6.7m         10.100.100.105   node6 requests[351], index[wsk_log-2019.03.14]
indices:data/write/bulk[s][p]  xt-LfJPdQPaO7uC-lX7TFw:17591939 xt-LfJPdQPaO7uC-lX7TFw:17591938 direct    1552583716178 17:15:16  6.7m         10.100.100.105   node6 requests[351], index[wsk_log-2019.03.14]
...
...
...
indices:data/write/bulk[s]     Jffd7IX0RCa-UR228cW2Xw:18980372 Jffd7IX0RCa-UR228cW2Xw:18980363 transport 1552584122394 17:22:02  14.3ms       10.4.4.75    node3   requests[328], index[wsk_log-2019.03.14]
indices:data/write/bulk[s]     Jffd7IX0RCa-UR228cW2Xw:18980374 Jffd7IX0RCa-UR228cW2Xw:18980363 transport 1552584122394 17:22:02  13.9ms       10.4.4.75    node3   requests[353], index[wsk_log-2019.03.14]
indices:data/write/bulk[s]     Jffd7IX0RCa-UR228cW2Xw:18980375 Jffd7IX0RCa-UR228cW2Xw:18980363 transport 1552584122395 17:22:02  13.4ms       10.4.4.75    node3   requests[352], index[wsk_log-2019.03.14]
indices:data/write/bulk[s][p]  Jffd7IX0RCa-UR228cW2Xw:18980377 Jffd7IX0RCa-UR228cW2Xw:18980375 direct    1552584122395 17:22:02  13.4ms       10.4.4.75    node3   requests[352], index[wsk_log-2019.03.14]
indices:data/write/bulk[s]     Jffd7IX0RCa-UR228cW2Xw:18980376 Jffd7IX0RCa-UR228cW2Xw:18980363 transport 1552584122395 17:22:02  13.4ms       10.4.4.75    node3   requests[339], index[wsk_log-2019.03.14]

Filebeat logs have tons of "Timeout exceeded while awaiting headers" to all nodes:

|2019-03-14T19:29:27.164+0300|ERROR|pipeline/output.go:121|Failed to publish events: Post http://node3:9200/_bulk: net/http: request canceled (Client.Timeout exceeded while awaiting headers)|
|2019-03-14T20:00:23.654+0300|ERROR|elasticsearch/client.go:319|Failed to perform any bulk index operations: Post http://node2:9200/_bulk: net/http: request canceled (Client.Timeout exceeded while awaiting headers)|
|2019-03-14T20:00:24.949+0300|ERROR|pipeline/output.go:121|Failed to publish events: Post http://node1:9200/_bulk: net/http: request canceled (Client.Timeout exceeded while awaiting headers)|

filebeat monitoring page in kibana

I'm pretty sure that I caused it, because we want to write 2-3 times as many data next month, and i was playing around with different settings ( shard number, reshresh_interval, async translog, etc.). I reverted all obvious settings back but that didn't help

9a614c14b7d7bbfd64cb · March 15, 2019, 9:14am

Adding GC logs from two nodes when the cluster is having performance problems:

node1

2019-03-15T12:07:53.165+0300: 229891.185: Total time for which application threads were stopped: 0.0303483 seconds, Stopping threads took: 0.0002258 seconds
2019-03-15T12:08:02.244+0300: 229900.263: [GC (Allocation Failure) 2019-03-15T12:08:02.244+0300: 229900.264: [ParNew
Desired survivor size 100302848 bytes, new threshold 6 (max 6)

age 1: 82932328 bytes, 82932328 total

age 2: 4693544 bytes, 87625872 total

age 3: 7913040 bytes, 95538912 total
: 1628314K->112969K(1763584K), 0.0280728 secs] 7974487K->6459143K(24969920K), 0.0284540 secs] [Times: user=0.56 sys=0.00, real=0.03 secs]
2019-03-15T12:08:02.272+0300: 229900.292: Total time for which application threads were stopped: 0.0317026 seconds, Stopping threads took: 0.0003983 seconds
2019-03-15T12:08:02.277+0300: 229900.297: Total time for which application threads were stopped: 0.0039949 seconds, Stopping threads took: 0.0004859 seconds
2019-03-15T12:08:02.279+0300: 229900.299: Total time for which application threads were stopped: 0.0024863 seconds, Stopping threads took: 0.0002720 seconds
2019-03-15T12:08:15.812+0300: 229913.832: [GC (Allocation Failure) 2019-03-15T12:08:15.812+0300: 229913.832: [ParNew
Desired survivor size 100302848 bytes, new threshold 6 (max 6)

age 1: 26757384 bytes, 26757384 total

age 2: 46704808 bytes, 73462192 total

age 3: 3417424 bytes, 76879616 total

age 4: 7833592 bytes, 84713208 total
: 1680579K->118888K(1763584K), 0.0239332 secs] 8026752K->6465062K(24969920K), 0.0244503 secs] [Times: user=0.47 sys=0.02, real=0.02 secs]
2019-03-15T12:08:15.836+0300: 229913.856: Total time for which application threads were stopped: 0.0285061 seconds, Stopping threads took: 0.0002723 seconds
2019-03-15T12:08:20.962+0300: 229918.982: [GC (Allocation Failure) 2019-03-15T12:08:20.963+0300: 229918.982: [ParNew
Desired survivor size 100302848 bytes, new threshold 3 (max 6)

age 1: 56353752 bytes, 56353752 total

age 2: 15291736 bytes, 71645488 total

age 3: 45819696 bytes, 117465184 total

age 4: 3416736 bytes, 120881920 total

age 5: 7833288 bytes, 128715208 total
: 1686223K->165912K(1763584K), 0.0337720 secs] 8032396K->6512086K(24969920K), 0.0342510 secs] [Times: user=0.68 sys=0.01, real=0.03 secs]
2019-03-15T12:08:20.997+0300: 229919.017: Total time for which application threads were stopped: 0.0384867 seconds, Stopping threads took: 0.0003864 seconds
2019-03-15T12:08:23.674+0300: 229921.694: [GC (Allocation Failure) 2019-03-15T12:08:23.675+0300: 229921.694: [ParNew
Desired survivor size 100302848 bytes, new threshold 6 (max 6)

age 1: 55795896 bytes, 55795896 total

age 2: 33573752 bytes, 89369648 total

age 3: 8971816 bytes, 98341464 total
: 1733592K->143921K(1763584K), 0.0633568 secs] 8079766K->6545101K(24969920K), 0.0636862 secs] [Times: user=0.98 sys=0.01, real=0.06 secs]
2019-03-15T12:08:23.738+0300: 229921.758: Total time for which application threads were stopped: 0.0668550 seconds, Stopping threads took: 0.0003665 seconds
2019-03-15T12:08:23.741+0300: 229921.761: Total time for which application threads were stopped: 0.0027142 seconds, Stopping threads took: 0.0001819 seconds
2019-03-15T12:08:26.708+0300: 229924.728: [GC (Allocation Failure) 2019-03-15T12:08:26.708+0300: 229924.728: [ParNew
Desired survivor size 100302848 bytes, new threshold 2 (max 6)

age 1: 96512632 bytes, 96512632 total

age 2: 29608200 bytes, 126120832 total

age 3: 19138776 bytes, 145259608 total

age 4: 8860632 bytes, 154120240 total
: 1711601K->192904K(1763584K), 0.0352229 secs] 8112781K->6594084K(24969920K), 0.0356263 secs] [Times: user=0.74 sys=0.01, real=0.04 secs]
2019-03-15T12:08:26.744+0300: 229924.763: Total time for which application threads were stopped: 0.0397827 seconds, Stopping threads took: 0.0004029 seconds
2019-03-15T12:08:28.506+0300: 229926.525: Total time for which application threads were stopped: 0.0044951 seconds, Stopping threads took: 0.0004016 seconds
2019-03-15T12:08:29.064+0300: 229927.083: Total time for which application threads were stopped: 0.0039555 seconds, Stopping threads took: 0.0002878 seconds
2019-03-15T12:08:29.379+0300: 229927.399: [GC (Allocation Failure) 2019-03-15T12:08:29.380+0300: 229927.399: [ParNew
Desired survivor size 100302848 bytes, new threshold 2 (max 6)

age 1: 81767344 bytes, 81767344 total

age 2: 38230472 bytes, 119997816 total
: 1760382K->171595K(1763584K), 0.0940012 secs] 8161562K->6619717K(24969920K), 0.0944432 secs] [Times: user=1.87 sys=0.00, real=0.10 secs]
2019-03-15T12:08:29.474+0300: 229927.494: Total time for which application threads were stopped: 0.0987340 seconds, Stopping threads took: 0.0005029 seconds
2019-03-15T12:08:29.481+0300: 229927.501: Total time for which application threads were stopped: 0.0072597 seconds, Stopping threads took: 0.0002741 seconds
2019-03-15T12:08:29.910+0300: 229927.929: Total time for which application threads were stopped: 0.0042111 seconds, Stopping threads took: 0.0005745 seconds
2019-03-15T12:08:32.372+0300: 229930.391: [GC (Allocation Failure) 2019-03-15T12:08:32.372+0300: 229930.392: [ParNew
Desired survivor size 100302848 bytes, new threshold 2 (max 6)

age 1: 46041240 bytes, 46041240 total

age 2: 60850320 bytes, 106891560 total
: 1739082K->148034K(1763584K), 0.0552605 secs] 8187205K->6632623K(24969920K), 0.0556744 secs] [Times: user=1.08 sys=0.02, real=0.06 secs]
2019-03-15T12:08:32.427+0300: 229930.447: Total time for which application threads were stopped: 0.0600076 seconds, Stopping threads took: 0.0005303 seconds
2019-03-15T12:08:32.432+0300: 229930.451: Total time for which application threads were stopped: 0.0039790 seconds, Stopping threads took: 0.0003908 seconds

9a614c14b7d7bbfd64cb · March 15, 2019, 9:15am

node2

2019-03-15T12:08:25.890+0300: 229956.414: Total time for which application threads were stopped: 0.0330919 seconds, Stopping threads took: 0.0002186 seconds
2019-03-15T12:08:31.648+0300: 229962.172: [GC (Allocation Failure) 2019-03-15T12:08:31.648+0300: 229962.172: [ParNew
Desired survivor size 143917056 bytes, new threshold 3 (max 6)

age 1: 87153128 bytes, 87153128 total

age 2: 50197528 bytes, 137350656 total

age 3: 33901680 bytes, 171252336 total

age 4: 9472312 bytes, 180724648 total

age 5: 6235264 bytes, 186959912 total
: 2406405K->227611K(2530368K), 0.0233377 secs] 9579354K->7400560K(16496128K), 0.0236024 secs] [Times: user=0.66 sys=0.02, real=0.02 secs]
2019-03-15T12:08:31.672+0300: 229962.196: Total time for which application threads were stopped: 0.0264758 seconds, Stopping threads took: 0.0001619 seconds
2019-03-15T12:08:42.706+0300: 229973.230: [GC (Allocation Failure) 2019-03-15T12:08:42.706+0300: 229973.231: [ParNew
Desired survivor size 143917056 bytes, new threshold 6 (max 6)

age 1: 49637392 bytes, 49637392 total

age 2: 25997944 bytes, 75635336 total

age 3: 41338864 bytes, 116974200 total
: 2476660K->185824K(2530368K), 0.0540454 secs] 9649609K->7405942K(16496128K), 0.0544034 secs] [Times: user=0.65 sys=0.65, real=0.05 secs]
2019-03-15T12:08:42.761+0300: 229973.285: Total time for which application threads were stopped: 0.0623779 seconds, Stopping threads took: 0.0003725 seconds
2019-03-15T12:08:42.763+0300: 229973.287: Total time for which application threads were stopped: 0.0021573 seconds, Stopping threads took: 0.0001647 seconds
2019-03-15T12:08:42.765+0300: 229973.289: Total time for which application threads were stopped: 0.0016101 seconds, Stopping threads took: 0.0000717 seconds
2019-03-15T12:08:51.202+0300: 229981.726: [GC (Allocation Failure) 2019-03-15T12:08:51.202+0300: 229981.726: [ParNew
Desired survivor size 143917056 bytes, new threshold 6 (max 6)

age 1: 38139808 bytes, 38139808 total

age 2: 14452864 bytes, 52592672 total

age 3: 17936584 bytes, 70529256 total

age 4: 33019976 bytes, 103549232 total
: 2435104K->132814K(2530368K), 0.0176074 secs] 9655222K->7352933K(16496128K), 0.0178895 secs] [Times: user=0.46 sys=0.04, real=0.02 secs]
2019-03-15T12:08:51.220+0300: 229981.744: Total time for which application threads were stopped: 0.0202756 seconds, Stopping threads took: 0.0001998 seconds
2019-03-15T12:08:58.912+0300: 229989.436: [GC (Allocation Failure) 2019-03-15T12:08:58.912+0300: 229989.436: [ParNew
Desired survivor size 143917056 bytes, new threshold 6 (max 6)

age 1: 69549320 bytes, 69549320 total

age 2: 2470632 bytes, 72019952 total

age 3: 8552200 bytes, 80572152 total

age 4: 4901240 bytes, 85473392 total

age 5: 6274184 bytes, 91747576 total
: 2382094K->112943K(2530368K), 0.0153911 secs] 9602213K->7333061K(16496128K), 0.0156701 secs] [Times: user=0.38 sys=0.04, real=0.02 secs]
2019-03-15T12:08:58.928+0300: 229989.452: Total time for which application threads were stopped: 0.0180974 seconds, Stopping threads took: 0.0002262 seconds
2019-03-15T12:08:58.930+0300: 229989.454: Total time for which application threads were stopped: 0.0021106 seconds, Stopping threads took: 0.0001279 seconds
2019-03-15T12:09:02.461+0300: 229992.986: [GC (Allocation Failure) 2019-03-15T12:09:02.462+0300: 229992.986: [ParNew
Desired survivor size 143917056 bytes, new threshold 4 (max 6)

age 1: 98317120 bytes, 98317120 total

age 2: 41850960 bytes, 140168080 total

age 3: 2275728 bytes, 142443808 total

age 4: 8542560 bytes, 150986368 total

age 5: 4860376 bytes, 155846744 total

age 6: 6224384 bytes, 162071128 total
: 2362217K->195981K(2530368K), 0.0197906 secs] 9582335K->7416099K(16496128K), 0.0200575 secs] [Times: user=0.53 sys=0.04, real=0.02 secs]
2019-03-15T12:09:02.482+0300: 229993.006: Total time for which application threads were stopped: 0.0226661 seconds, Stopping threads took: 0.0002500 seconds
2019-03-15T12:09:05.499+0300: 229996.023: [GC (Allocation Failure) 2019-03-15T12:09:05.499+0300: 229996.023: [ParNew
Desired survivor size 143917056 bytes, new threshold 3 (max 6)

age 1: 84513344 bytes, 84513344 total

age 2: 58521688 bytes, 143035032 total

age 3: 21902528 bytes, 164937560 total

age 4: 2090864 bytes, 167028424 total
: 2445261K->222052K(2530368K), 0.0271073 secs] 9665379K->7459848K(16496128K), 0.0273890 secs] [Times: user=0.63 sys=0.04, real=0.03 secs]
2019-03-15T12:09:05.526+0300: 229996.051: Total time for which application threads were stopped: 0.0297666 seconds, Stopping threads took: 0.0001703 seconds
2019-03-15T12:09:10.088+0300: 230000.612: [GC (Allocation Failure) 2019-03-15T12:09:10.088+0300: 230000.612: [ParNew
Desired survivor size 143917056 bytes, new threshold 2 (max 6)

age 1: 94554216 bytes, 94554216 total

age 2: 70974504 bytes, 165528720 total

age 3: 42203256 bytes, 207731976 total
: 2471024K->260994K(2530368K), 0.0566352 secs] 9708821K->7515180K(16496128K), 0.0569177 secs] [Times: user=0.72 sys=0.91, real=0.06 secs]
2019-03-15T12:09:10.145+0300: 230000.669: Total time for which application threads were stopped: 0.0646817 seconds, Stopping threads took: 0.0004572 seconds
2019-03-15T12:09:10.147+0300: 230000.671: Total time for which application threads were stopped: 0.0020909 seconds, Stopping threads took: 0.0001169 seconds
2019-03-15T12:09:10.149+0300: 230000.673: Total time for which application threads were stopped: 0.0015765 seconds, Stopping threads took: 0.0000555 seconds
2019-03-15T12:09:14.358+0300: 230004.883: Total time for which application threads were stopped: 0.0024226 seconds, Stopping threads took: 0.0002730 seconds
2019-03-15T12:09:15.322+0300: 230005.847: [GC (Allocation Failure) 2019-03-15T12:09:15.323+0300: 230005.847: [ParNew
Desired survivor size 143917056 bytes, new threshold 6 (max 6)

age 1: 39115360 bytes, 39115360 total

age 2: 45699688 bytes, 84815048 total
: 2510274K->179224K(2530368K), 0.0362748 secs] 9764460K->7501352K(16496128K), 0.0365657 secs] [Times: user=0.71 sys=0.04, real=0.04 secs]
2019-03-15T12:09:15.359+0300: 230005.883: Total time for which application threads were stopped: 0.0388821 seconds, Stopping threads took: 0.0001546 seconds
2019-03-15T12:09:15.361+0300: 230005.885: Total time for which application threads were stopped: 0.0020889 seconds, Stopping threads took: 0.0001092 seconds
2019-03-15T12:09:15.363+0300: 230005.887: Total time for which application threads were stopped: 0.0016764 seconds, Stopping threads took: 0.0001010 seconds
2019-03-15T12:09:28.265+0300: 230018.789: [GC (Allocation Failure) 2019-03-

Christian_Dahlqvist · March 15, 2019, 9:20am

Why have you set this to such a large value? This seems considerably larger thanwhat is recommended. What does heap usage look like over time on the Elasticsearch nodes?

9a614c14b7d7bbfd64cb · March 15, 2019, 9:41am

Heap usage on 4 nodes from yesterday when i was having problems

node3-yesteday

Heap usage on node1 when i didn't have problems

9a614c14b7d7bbfd64cb · March 15, 2019, 9:46am

Indexing on node1 when i didn't have problems

Indexing on node1 from yesterday

I'm not including all the nodes. But they have same problems.

9a614c14b7d7bbfd64cb · March 15, 2019, 11:39am

Write thread pool stats while cluster is having issues

node_name   node_id                ephemeral_node_id      pid    host         ip           port name  type  active size queue queue_size rejected largest completed min max keep_alive
node1       ODJXLTi6SiqylmA-7mi1dA qCll0d6US2KKRUUDHBPfSw 110715 10.4.4.67    10.4.4.67    9300 write fixed     11   32     0        200        0      32   8425800  32  32           
node2       xt-LfJPdQPaO7uC-lX7TFw 4XEMPI0BQVqfzbii8MVksw 1      10.4.2.105   10.4.2.105   9301 write fixed      5   80     0        200        0      80   7945488  80  80           
node3       GX7h-MJNS-6fHoKrPE5CYw 5Qy2wYDxR5ayGdnBBUaqVg 1      10.4.2.105   10.4.2.105   9300 write fixed      9   80     0        200        0      80   7575050  80  80           
node4       2di2-HhiT96b5Dc_b3iFCg 3s0T1Y9BR-OHVLZ0yl6H2w 101272 10.4.4.68    10.4.4.68    9300 write fixed      4   32     0        200      618      32   7549929  32  32           
node5       4l82ClI6RcGrcX5LE8NjfQ r-cmAP5DQMS8kfimb6YaYA 1      10.4.252.141 10.4.252.141 9300 write fixed      0    0     0        200        0       0         0  16  16           
node6       2WL_ibqfQwqcaS9bieWhaA MaJJyEHRRwy0x-A4CPFutQ 5126   10.4.2.43    10.4.2.43    9300 write fixed      0   32     0        200        0      32   1186904  32  32           
node7       i4NMLaq2QZSzyE16d2HIjg MJsA5C9BRS6wby1tW73t0w 15453  10.4.252.140 10.4.252.140 9300 write fixed      0   24     0        200        0      24     70997  24  24           
node8       Jffd7IX0RCa-UR228cW2Xw ELSBsa-bRO6YjoJlRjKsvA 391302 10.4.4.75    10.4.4.75    9300 write fixed      3   48     0        200        0      48   7628514  48  48

9a614c14b7d7bbfd64cb · March 18, 2019, 2:22pm

I fixed the performance issue by decreasing logstash bulk request size for one of my main indices from 4096 to 128

system · April 15, 2019, 2:23pm

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