Why does my MySQL Keep Crashing -- every 30 seconds on a 8gb 4 cpu droplet?

February 24, 2018 522 views
MySQL Ubuntu 16.04

I'd like to avoid using swap per digital ocean's recommendation not to do so. Can anyone tell me why this might be happening? Can anyone share a working .cnf file that is working on a LAMP droplet of this configuration?

I've checked tables for corruption, all OK

I've reinstalled the binaries. No Luck.

I've done a mysqldump, then dropped databases and restored from the .sql file, no luck.

I've read everything I've could and tried to tweak the .cnf settings. No luck.

This droplet is running the PHP and MySQL

Crash happens even when nothing is hitting apache

error.log:

00:31:04 UTC - mysqld got signal 6 ;
This could be because you hit a bug. It is also possible that this binary
or one of the libraries it was linked against is corrupt, improperly built,
or misconfigured. This error can also be caused by malfunctioning hardware.
Attempting to collect some information that could help diagnose the problem.
As this is a crash and something is definitely wrong, the information
collection process might fail.

key_buffer_size=134217728
read_buffer_size=131072
max_used_connections=1
max_threads=214
thread_count=0
connection_count=0
It is possible that mysqld could use up to 
key_buffer_size + (read_buffer_size + sort_buffer_size)*max_threads = 216106 K  bytes of memory
Hope that's ok; if not, decrease some variables in the equation.

Thread pointer: 0x0
Attempting backtrace. You can use the following information to find out
where mysqld died. If you see no messages after this, something went
terribly wrong...
stack_bottom = 0 thread_stack 0x20000
/usr/sbin/mysqld(my_print_stacktrace+0x3b)[0xe8f29b]
/usr/sbin/mysqld(handle_fatal_signal+0x489)[0x787029]
/lib/x86_64-linux-gnu/libpthread.so.0(+0x11390)[0x7f7a406fb390]
/lib/x86_64-linux-gnu/libc.so.6(__poll+0x2d)[0x7f7a3fb7a74d]
/usr/sbin/mysqld(_ZN22Mysqld_socket_listener27listen_for_connection_eventEv+0x47)[0xd17cc7]
/usr/sbin/mysqld(_Z11mysqld_mainiPPc+0x1e08)[0x782228]
/lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f7a3fa9f830]
/usr/sbin/mysqld(_start+0x29)[0x7772d9]
The manual page at http://dev.mysql.com/doc/mysql/en/crashing.html contains
information that should help you find out what is causing the crash.

Then systemd restarts it:

2018-02-24T00:36:29.181273Z 0 [Warning] Changed limits: max_open_files: 1024 (requested 5120)
2018-02-24T00:36:29.182047Z 0 [Warning] Changed limits: max_connections: 214 (requested 1024)
2018-02-24T00:36:29.182053Z 0 [Warning] Changed limits: table_open_cache: 400 (requested 1280)
2018-02-24T00:36:29.342782Z 0 [Note] /usr/sbin/mysqld (mysqld 5.7.21-0ubuntu0.16.04.1) starting as process 5519 ...
2018-02-24T00:36:29.352247Z 0 [Note] InnoDB: PUNCH HOLE support available
2018-02-24T00:36:29.352301Z 0 [Note] InnoDB: Mutexes and rw_locks use GCC atomic builtins
2018-02-24T00:36:29.352308Z 0 [Note] InnoDB: Uses event mutexes
2018-02-24T00:36:29.352312Z 0 [Note] InnoDB: GCC builtin __atomic_thread_fence() is used for memory barrier
2018-02-24T00:36:29.352316Z 0 [Note] InnoDB: Compressed tables use zlib 1.2.8
2018-02-24T00:36:29.352320Z 0 [Note] InnoDB: Using Linux native AIO
2018-02-24T00:36:29.352618Z 0 [Note] InnoDB: Number of pools: 1
2018-02-24T00:36:29.352740Z 0 [Note] InnoDB: Using CPU crc32 instructions
2018-02-24T00:36:29.354406Z 0 [Note] InnoDB: Initializing buffer pool, total size = 2G, instances = 2, chunk size = 128M
2018-02-24T00:36:29.475425Z 0 [Note] InnoDB: Completed initialization of buffer pool
2018-02-24T00:36:29.491928Z 0 [Note] InnoDB: If the mysqld execution user is authorized, page cleaner thread priority can be changed. See the man page of setpriority().
2018-02-24T00:36:29.503809Z 0 [Note] InnoDB: Highest supported file format is Barracuda.
2018-02-24T00:36:29.514380Z 0 [Note] InnoDB: Log scan progressed past the checkpoint lsn 1749636249
2018-02-24T00:36:29.514445Z 0 [Note] InnoDB: Doing recovery: scanned up to log sequence number 1749636258
2018-02-24T00:36:29.514454Z 0 [Note] InnoDB: Database was not shutdown normally!
2018-02-24T00:36:29.514462Z 0 [Note] InnoDB: Starting crash recovery.
2018-02-24T00:36:29.655702Z 0 [Note] InnoDB: Removed temporary tablespace data file: "ibtmp1"
2018-02-24T00:36:29.655743Z 0 [Note] InnoDB: Creating shared tablespace for temporary tables
2018-02-24T00:36:29.655791Z 0 [Note] InnoDB: Setting file './ibtmp1' size to 12 MB. Physically writing the file full; Please wait ...
2018-02-24T00:36:29.684600Z 0 [Note] InnoDB: File './ibtmp1' size is now 12 MB.
2018-02-24T00:36:29.685606Z 0 [Note] InnoDB: 96 redo rollback segment(s) found. 96 redo rollback segment(s) are active.
2018-02-24T00:36:29.685632Z 0 [Note] InnoDB: 32 non-redo rollback segment(s) are active.
2018-02-24T00:36:29.686062Z 0 [Note] InnoDB: Waiting for purge to start
2018-02-24T00:36:29.736288Z 0 [Note] InnoDB: 5.7.21 started; log sequence number 1749636258
2018-02-24T00:36:29.736894Z 0 [Note] InnoDB: Loading buffer pool(s) from /var/lib/mysql/ib_buffer_pool
2018-02-24T00:36:29.737195Z 0 [Note] Plugin 'FEDERATED' is disabled.
2018-02-24T00:36:29.740021Z 0 [Note] InnoDB: Buffer pool(s) load completed at 180224  0:36:29
2018-02-24T00:36:29.741704Z 0 [Warning] Failed to set up SSL because of the following SSL library error: SSL context is not usable without certificate and private key
2018-02-24T00:36:29.741730Z 0 [Note] Server hostname (bind-address): '127.0.0.1'; port: 3306
2018-02-24T00:36:29.741740Z 0 [Note]   - '127.0.0.1' resolves to '127.0.0.1';
2018-02-24T00:36:29.741771Z 0 [Note] Server socket created on IP: '127.0.0.1'.
2018-02-24T00:36:29.748874Z 0 [Note] Event Scheduler: Loaded 0 events
2018-02-24T00:36:29.749063Z 0 [Note] /usr/sbin/mysqld: ready for connections.
Version: '5.7.21-0ubuntu0.16.04.1'  socket: '/var/run/mysqld/mysqld.sock'  port: 3306  (Ubuntu)
2018-02-24T00:36:30.186097Z 2 [Note] Access denied for user 'root'@'localhost' (using password: NO)

1 comment
  • Can you provide the output of the mysql check to see if databases are corrupted, as that could very potentially be the cause, with InnoDB it's a bit of an in-depth process to get everything back up and running so want to make sure that corrupted database/tables are ruled out before going through great lengths to restore.

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