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From "Marcus Eriksson (JIRA)" <j...@apache.org>
Subject [jira] [Updated] (CASSANDRA-8552) Large compactions run out of off-heap RAM
Date Mon, 05 Jan 2015 10:23:35 GMT

     [ https://issues.apache.org/jira/browse/CASSANDRA-8552?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel
]

Marcus Eriksson updated CASSANDRA-8552:
---------------------------------------
    Reproduced In: 2.1.2, 2.1.1  (was: 2.1.1, 2.1.2)
         Assignee: Benedict  (was: Marcus Eriksson)

assigning [~benedict]

> Large compactions run out of off-heap RAM
> -----------------------------------------
>
>                 Key: CASSANDRA-8552
>                 URL: https://issues.apache.org/jira/browse/CASSANDRA-8552
>             Project: Cassandra
>          Issue Type: Bug
>          Components: Core
>         Environment: Ubuntu 14.4 
> AWS EC2
> 12 m1.xlarge nodes [4 cores, 16GB RAM, 1TB storage (251GB Used)]
> Java build 1.7.0_55-b13 and build 1.8.0_25-b17
>            Reporter: Brent Haines
>            Assignee: Benedict
>            Priority: Blocker
>             Fix For: 2.1.3
>
>         Attachments: Screen Shot 2015-01-02 at 9.36.11 PM.png, fhandles.log, freelog.log,
lsof.txt, meminfo.txt, sysctl.txt, system.log
>
>
> We have a large table of storing, effectively event logs and a pair of denormalized tables
for indexing.
> When updating from 2.0 to 2.1 we saw performance improvements, but some random and silent
crashes during nightly repairs. We lost a node (totally corrupted) and replaced it. That node
has never stabilized -- it simply can't finish the compactions. 
> Smaller compactions finish. Larger compactions, like these two never finish - 
> {code}
> pending tasks: 48
>    compaction type   keyspace             table     completed         total    unit 
 progress
>         Compaction       data           stories   16532973358   75977993784   bytes 
   21.76%
>         Compaction       data   stories_by_text   10593780658   38555048812   bytes 
   27.48%
> Active compaction remaining time :   0h10m51s
> {code}
> We are not getting exceptions and are not running out of heap space. The Ubuntu OOM killer
is reaping the process after all of the memory is consumed. We watch memory in the opscenter
console and it will grow. If we turn off the OOM killer for the process, it will run until
everything else is killed instead and then the kernel panics.
> We have the following settings configured: 
> 2G Heap
> 512M New
> {code}
> memtable_heap_space_in_mb: 1024
> memtable_offheap_space_in_mb: 1024
> memtable_allocation_type: heap_buffers
> commitlog_total_space_in_mb: 2048
> concurrent_compactors: 1
> compaction_throughput_mb_per_sec: 128
> {code}
> The compaction strategy is leveled (these are read-intensive tables that are rarely updated)
> I have tried every setting, every option and I have the system where the MTBF is about
an hour now, but we never finish compacting because there are some large compactions pending.
None of the GC tools or settings help because it is not a GC problem. It is an off-heap memory
problem.
> We are getting these messages in our syslog 
> {code}
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219527] BUG: Bad page map in process
java  pte:00000320 pmd:2d6fa5067
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219545] addr:00007fb820be3000 vm_flags:08000070
anon_vma:          (null) mapping:          (null) index:7fb820be3
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219556] CPU: 3 PID: 27344 Comm: java
Tainted: G    B        3.13.0-24-generic #47-Ubuntu
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219559]  ffff880028510e40 ffff88020d43da98
ffffffff81715ac4 00007fb820be3000
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219565]  ffff88020d43dae0 ffffffff81174183
0000000000000320 00000007fb820be3
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219568]  ffff8802d6fa5f18 0000000000000320
00007fb820be3000 00007fb820be4000
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219572] Call Trace:
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219584]  [<ffffffff81715ac4>] dump_stack+0x45/0x56
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219591]  [<ffffffff81174183>] print_bad_pte+0x1a3/0x250
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219594]  [<ffffffff81175439>] vm_normal_page+0x69/0x80
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219598]  [<ffffffff8117580b>] unmap_page_range+0x3bb/0x7f0
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219602]  [<ffffffff81175cc1>] unmap_single_vma+0x81/0xf0
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219605]  [<ffffffff81176d39>] unmap_vmas+0x49/0x90
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219610]  [<ffffffff8117feec>] exit_mmap+0x9c/0x170
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219617]  [<ffffffff8110fcf3>] ?
__delayacct_add_tsk+0x153/0x170
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219621]  [<ffffffff8106482c>] mmput+0x5c/0x120
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219625]  [<ffffffff81069bbc>] do_exit+0x26c/0xa50
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219631]  [<ffffffff810d7591>] ?
__unqueue_futex+0x31/0x60
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219634]  [<ffffffff810d83b6>] ?
futex_wait+0x126/0x290
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219640]  [<ffffffff8171d8e0>] ?
_raw_spin_unlock_irqrestore+0x20/0x40
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219643]  [<ffffffff8106a41f>] do_group_exit+0x3f/0xa0
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219649]  [<ffffffff8107a050>] get_signal_to_deliver+0x1d0/0x6f0
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219655]  [<ffffffff81013448>] do_signal+0x48/0x960
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219660]  [<ffffffff811112fc>] ?
acct_account_cputime+0x1c/0x20
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219664]  [<ffffffff8109d76b>] ?
account_user_time+0x8b/0xa0
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219667]  [<ffffffff8109dd84>] ?
vtime_account_user+0x54/0x60
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219671]  [<ffffffff81013dc9>] do_notify_resume+0x69/0xb0
> Jan  2 07:06:00 ip-10-0-2-226 kernel: [49801151.219676]  [<ffffffff8172676a>] int_signal+0x12/0x17
> {code}
> This seems like unmap is failing, but I am uncertain about how to fix it or work around
it.
> For completeness sake, let me point this out too: The system.log will show whatever was
happening when the system stops and the the service is restarted. There is no stake trace.
Here is an example: 
> {code}
> INFO  [main] 2015-01-02 06:38:38,813 ColumnFamilyStore.java:840 - Enqueuing flush of
local: 1552 (0%) on-heap, 0 (0%) off-heap
> INFO  [MemtableFlushWriter:1] 2015-01-02 06:38:38,813 Memtable.java:325 - Writing Memtable-local@172795560(281
serialized bytes, 10 ops, 0%/0% of on/off-heap limit)
> INFO  [MemtableFlushWriter:1] 2015-01-02 06:38:38,824 Memtable.java:364 - Completed flushing
/data/cassandra/data/system/local-7ad54392bcdd35a684174e047860b377/system-local-ka-778-Data.db
(262 bytes) for commitlog position ReplayPosition(segmentId=1420180671225,
>  position=87520)
> INFO  [main] 2015-01-02 06:38:38,825 YamlConfigurationLoader.java:92 - Loading settings
from file:/etc/cassandra/cassandra.yaml
> INFO  [main] 2015-01-02 06:38:38,837 YamlConfigurationLoader.java:135 - Node configuration:[authenticator=AllowAllAuthenticator;
authorizer=AllowAllAuthorizer; auto_snapshot=true; batch_size_warn_threshold_in_kb=5; batchlog_replay_throttle_in_kb=1024;
cas_conten
> tion_timeout_in_ms=1000; client_encryption_options=<REDACTED>; cluster_name=booshaka-batch;
column_index_size_in_kb=64; commit_failure_policy=stop; commitlog_directory=/commitlog/cassandra/commitlog;
commitlog_segment_size_in_mb=32; commitlog_sync=periodic; comm
> itlog_sync_period_in_ms=10000; commitlog_total_space_in_mb=2048; compaction_throughput_mb_per_sec=128;
concurrent_compactors=1; concurrent_counter_writes=32; concurrent_reads=48; concurrent_writes=48;
counter_cache_save_period=7200; counter_cache_size_in_mb=null
> ; counter_write_request_timeout_in_ms=5000; cross_node_timeout=false; data_file_directories=[/data/cassandra/data];
disk_failure_policy=stop; dynamic_snitch_badness_threshold=0.1; dynamic_snitch_reset_interval_in_ms=600000;
dynamic_snitch_update_interval_in_ms=1
> 00; endpoint_snitch=Ec2Snitch; hinted_handoff_enabled=true; hinted_handoff_throttle_in_kb=1024;
incremental_backups=false; index_summary_capacity_in_mb=null; index_summary_resize_interval_in_minutes=60;
inter_dc_tcp_nodelay=false; internode_compression=all; key_
> cache_save_period=14400; key_cache_size_in_mb=null; listen_address=10.0.2.226; max_hint_window_in_ms=10800000;
max_hints_delivery_threads=2; memtable_allocation_type=heap_buffers; memtable_cleanup_threshold=0.33;
memtable_heap_space_in_mb=1024; memtable_offheap_
> space_in_mb=1024; native_transport_port=9042; num_tokens=256; partitioner=org.apache.cassandra.dht.Murmur3Partitioner;
permissions_validity_in_ms=2000; phi_convict_threshold=12; range_request_timeout_in_ms=10000;
read_request_timeout_in_ms=5000; request_schedule
> r=org.apache.cassandra.scheduler.NoScheduler; request_timeout_in_ms=10000; row_cache_save_period=0;
row_cache_size_in_mb=0; rpc_address=10.0.2.226; rpc_keepalive=true; rpc_port=9160; rpc_server_type=sync;
saved_caches_directory=/data/cassandra/saved_caches; seed
> _provider=[{class_name=org.apache.cassandra.locator.SimpleSeedProvider, parameters=[{seeds=10.0.2.8,10.0.2.144,10.0.2.145}]}];
server_encryption_options=<REDACTED>; snapshot_before_compaction=false; ssl_storage_port=7001;
sstable_preemptive_open_interval_in_mb=5
> 0; start_native_transport=true; start_rpc=true; storage_port=7000; thrift_framed_transport_size_in_mb=15;
tombstone_failure_threshold=100000; tombstone_warn_threshold=1000; trickle_fsync=false; trickle_fsync_interval_in_kb=10240;
truncate_request_timeout_in_ms=6
> 0000; write_request_timeout_in_ms=2000]
> INFO  [main] 2015-01-02 06:38:38,943 MessagingService.java:477 - Starting Messaging Service
on port 7000
> INFO  [main] 2015-01-02 06:38:38,981 YamlConfigurationLoader.java:92 - Loading settings
from file:/etc/cassandra/cassandra.yaml
> INFO  [main] 2015-01-02 06:38:38,987 YamlConfigurationLoader.java:135 - Node configuration:[authenticator=AllowAllAuthenticator;
authorizer=AllowAllAuthorizer; auto_snapshot=true; batch_size_warn_threshold_in_kb=5; batchlog_replay_throttle_in_kb=1024;
cas_conten
> tion_timeout_in_ms=1000; client_encryption_options=<REDACTED>; cluster_name=booshaka-batch;
column_index_size_in_kb=64; commit_failure_policy=stop; commitlog_directory=/commitlog/cassandra/commitlog;
commitlog_segment_size_in_mb=32; commitlog_sync=periodic; comm
> itlog_sync_period_in_ms=10000; commitlog_total_space_in_mb=2048; compaction_throughput_mb_per_sec=128;
concurrent_compactors=1; concurrent_counter_writes=32; concurrent_reads=48; concurrent_writes=48;
counter_cache_save_period=7200; counter_cache_size_in_mb=null
> ; counter_write_request_timeout_in_ms=5000; cross_node_timeout=false; data_file_directories=[/data/cassandra/data];
disk_failure_policy=stop; dynamic_snitch_badness_threshold=0.1; dynamic_snitch_reset_interval_in_ms=600000;
dynamic_snitch_update_interval_in_ms=1
> 00; endpoint_snitch=Ec2Snitch; hinted_handoff_enabled=true; hinted_handoff_throttle_in_kb=1024;
incremental_backups=false; index_summary_capacity_in_mb=null; index_summary_resize_interval_in_minutes=60;
inter_dc_tcp_nodelay=false; internode_compression=all; key_
> cache_save_period=14400; key_cache_size_in_mb=null; listen_address=10.0.2.226; max_hint_window_in_ms=10800000;
max_hints_delivery_threads=2; memtable_allocation_type=heap_buffers; memtable_cleanup_threshold=0.33;
memtable_heap_space_in_mb=1024; memtable_offheap_
> space_in_mb=1024; native_transport_port=9042; num_tokens=256; partitioner=org.apache.cassandra.dht.Murmur3Partitioner;
permissions_validity_in_ms=2000; phi_convict_threshold=12; range_request_timeout_in_ms=10000;
read_request_timeout_in_ms=5000; request_schedule
> r=org.apache.cassandra.scheduler.NoScheduler; request_timeout_in_ms=10000; row_cache_save_period=0;
row_cache_size_in_mb=0; rpc_address=10.0.2.226; rpc_keepalive=true; rpc_port=9160; rpc_server_type=sync;
saved_caches_directory=/data/cassandra/saved_caches; seed
> _provider=[{class_name=org.apache.cassandra.locator.SimpleSeedProvider, parameters=[{seeds=10.0.2.8,10.0.2.144,10.0.2.145}]}];
server_encryption_options=<REDACTED>; snapshot_before_compaction=false; ssl_storage_port=7001;
sstable_preemptive_open_interval_in_mb=5
> 0; start_native_transport=true; start_rpc=true; storage_port=7000; thrift_framed_transport_size_in_mb=15;
tombstone_failure_threshold=100000; tombstone_warn_threshold=1000; trickle_fsync=false; trickle_fsync_interval_in_kb=10240;
truncate_request_timeout_in_ms=6
> 0000; write_request_timeout_in_ms=2000]
> {code}



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