The mysql service failed to start error

CompWebStudio

Registered
Feb 24, 2019
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Poland
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Hi,

I have a problem with a server MySQL after update Cpanel to v78.0.11 on CENTOS 7.6.
After update but not yet restart serwer my service SQL goes down and all website are whitout database. Service don't start after restart this and full restart server.

Lower is my problem:

Code:
Waiting for “mysql” to start ………Unrecognized configuration options may have caused the MySQL startup errors. The system has attempted to auto-update your MySQL configuration file for your MySQL version. This should resolve any errors that stem from an outdated MySQL configuration file. …Unrecognized configuration options may have caused the MySQL startup errors. The system has attempted to auto-update your MySQL configuration file for your MySQL version. This should resolve any errors that stem from an outdated MySQL configuration file. …failed.

Cpanel::Exception::Services::StartError Service Status

Service Error
(XID q58dv7) The “mysql” service failed to start.

Startup Log
Feb 24 14:36:15 server.example.com systemd[1]: Starting MySQL Server...

Log Messages
/usr/sbin/mysqld[0x10a3788]
/usr/sbin/mysqld[0x10a1685]
/usr/sbin/mysqld[0x78915e]
/usr/sbin/mysqld[0x789636]
/usr/sbin/mysqld[0x10a3788]
/usr/sbin/mysqld[0x10a1685]
/usr/sbin/mysqld[0x78915e]
/usr/sbin/mysqld[0x789636]

mysql has failed. Contact your system administrator if the service does not automagically recover.
And here is some part of log mysqld.log:
Code:
2019-02-24T18:02:01.309162Z 0 [Warning] TIMESTAMP with implicit DEFAULT value is deprecated. Please use --explicit_defaults_for_timestamp server option (see documentation for more details).
2019-02-24T18:02:01.309575Z 0 [Note] /usr/sbin/mysqld (mysqld 5.7.25) starting as process 10712 ...
2019-02-24T18:02:01.312557Z 0 [Note] InnoDB: PUNCH HOLE support available
2019-02-24T18:02:01.312593Z 0 [Note] InnoDB: Mutexes and rw_locks use GCC atomic builtins
2019-02-24T18:02:01.312598Z 0 [Note] InnoDB: Uses event mutexes
2019-02-24T18:02:01.312603Z 0 [Note] InnoDB: GCC builtin __atomic_thread_fence() is used for memory barrier
2019-02-24T18:02:01.312607Z 0 [Note] InnoDB: Compressed tables use zlib 1.2.11
2019-02-24T18:02:01.312610Z 0 [Note] InnoDB: Using Linux native AIO
2019-02-24T18:02:01.312993Z 0 [Note] InnoDB: Number of pools: 1
2019-02-24T18:02:01.313100Z 0 [Note] InnoDB: Using CPU crc32 instructions
2019-02-24T18:02:01.314672Z 0 [Note] InnoDB: Initializing buffer pool, total size = 128M, instances = 1, chunk size = 128M
2019-02-24T18:02:01.321980Z 0 [Note] InnoDB: Completed initialization of buffer pool
2019-02-24T18:02:01.323919Z 0 [Note] InnoDB: If the mysqld execution user is authorized, page cleaner thread priority can be changed. See the man page of setpriority().
2019-02-24T18:02:01.335810Z 0 [Note] InnoDB: Highest supported file format is Barracuda.
2019-02-24T18:02:01.337347Z 0 [Note] InnoDB: Log scan progressed past the checkpoint lsn 209214260698
2019-02-24T18:02:01.337399Z 0 [Note] InnoDB: Doing recovery: scanned up to log sequence number 209214316726
2019-02-24T18:02:01.338117Z 0 [Note] InnoDB: Database was not shutdown normally!
2019-02-24T18:02:01.338127Z 0 [Note] InnoDB: Starting crash recovery.
2019-02-24T18:02:01.345281Z 0 [Note] InnoDB: 1 transaction(s) which must be rolled back or cleaned up in total 0 row operations to undo
2019-02-24T18:02:01.345308Z 0 [Note] InnoDB: Trx id counter is 163592960
2019-02-24T18:02:01.345396Z 0 [Note] InnoDB: Starting an apply batch of log records to the database...
InnoDB: Progress in percent: 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
2019-02-24T18:02:01.852711Z 0 [Note] InnoDB: Apply batch completed
2019-02-24T18:02:01.952998Z 0 [Note] InnoDB: Cleaning up trx with id 52968641
2019-02-24T18:02:02.097048Z 0 [Note] InnoDB: Removed temporary tablespace data file: "ibtmp1"
2019-02-24T18:02:02.097069Z 0 [Note] InnoDB: Creating shared tablespace for temporary tables
2019-02-24T18:02:02.097273Z 0 [Note] InnoDB: Setting file './ibtmp1' size to 12 MB. Physically writing the file full; Please wait ...
2019-02-24T18:02:02.139788Z 0 [Note] InnoDB: File './ibtmp1' size is now 12 MB.
2019-02-24T18:02:02.142358Z 0 [Note] InnoDB: 96 redo rollback segment(s) found. 96 redo rollback segment(s) are active.
2019-02-24T18:02:02.142387Z 0 [Note] InnoDB: 32 non-redo rollback segment(s) are active.
2019-02-24T18:02:02.143322Z 0 [Note] InnoDB: Waiting for purge to start
2019-02-24 19:02:02 0x7f0a0a7fc700  InnoDB: Assertion failure in thread 139681102546688 in file fut0lst.ic line 85
InnoDB: Failing assertion: addr.page == FIL_NULL || addr.boffset >= FIL_PAGE_DATA
InnoDB: We intentionally generate a memory trap.
InnoDB: Submit a detailed bug report to [URL='http://bugs.mysql.com']MySQL Bugs[/URL].
InnoDB: If you get repeated assertion failures or crashes, even
InnoDB: immediately after the mysqld startup, there may be
InnoDB: corruption in the InnoDB tablespace. Please refer to
InnoDB: [URL='http://dev.mysql.com/doc/refman/5.7/en/forcing-innodb-recovery.html']MySQL :: MySQL 5.7 Reference Manual :: 14.21.2 Forcing InnoDB Recovery[/URL]
InnoDB: about forcing recovery.
18:02:02 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=8388608
read_buffer_size=131072
max_used_connections=0
max_threads=500
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 = 206883 K  bytes of memory
Hope that's ok; if not, decrease some variables in the equation.

Thread pointer: 0x7f0a04000900
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 = 7f0a0a7fbdb0 thread_stack 0x40000
/usr/sbin/mysqld(my_print_stacktrace+0x3b)[0xf0768b]
/usr/sbin/mysqld(handle_fatal_signal+0x461)[0x7b9311]
/lib64/libpthread.so.0(+0xf5d0)[0x7f0a23c0c5d0]
/lib64/libc.so.6(gsignal+0x37)[0x7f0a225f6207]
/lib64/libc.so.6(abort+0x148)[0x7f0a225f78f8]
/usr/sbin/mysqld[0x789636]
/usr/sbin/mysqld[0x78915e]
/usr/sbin/mysqld[0x10a1685]
/usr/sbin/mysqld[0x10a3788]
/usr/sbin/mysqld(_Z9trx_purgemmb+0x3c9)[0x10a5f89]
/usr/sbin/mysqld(srv_purge_coordinator_thread+0xded)[0x107e59d]
/lib64/libpthread.so.0(+0x7dd5)[0x7f0a23c04dd5]
/lib64/libc.so.6(clone+0x6d)[0x7f0a226bdead]

Trying to get some variables.
Some pointers may be invalid and cause the dump to abort.
Query (0): Connection ID (thread ID): 0
Status: NOT_KILLED

The manual page at [URL='http://dev.mysql.com/doc/mysql/en/crashing.html']MySQL :: MySQL 8.0 Reference Manual :: B.6.3.3 What to Do If MySQL Keeps Crashing[/URL] contains
information that should help you find out what is causing the crash.
 
Last edited by a moderator:

cPanelMichael

Technical Support Community Manager
Staff member
Apr 11, 2011
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Twitter
Hello @CompWebStudio,

The link provided in the previous post is a good place to start when troubleshooting InnoDB corruption. As far as why this happened after the update to version 78, can you share the contents of the /etc/my.cnf file on this system? EX:

Code:
cat /etc/my.cnf
Thank you.