MySQL slow and server optimization

[leisegang]

I currently use:

* PHP 7.2 with Zend Opcache
* Engintron (Nginx plugin for cPanel)
* PHP-FPM

6 core / 12 thread server with hdd and 64gb ram

This is my.cnf:

[mysqld]
log-error=/var/lib/mysql/server.err
#open_files_limit=2000
performance_schema = ON
bind-address=127.0.0.1
local-infile=0
default-storage-engine=InnoDB
skip-name-resolve
table_open_cache = 9500
max_connections = 400
thread_cache_size = 64
max_allowed_packet=268435456
innodb_buffer_pool_size=8G
innodb_buffer_pool_instances = 4
innodb_file_per_table=1
innodb_log_file_size=2G
interactive_timeout = 100
connect_timeout = 60
wait_timeout = 300
query_cache_size = 256M
query_cache_type = ON
query_cache_limit = 2M
tmp_table_size = 256M
max_heap_table_size = 256M
join_buffer_size=64M
read_buffer_size=8M
sort_buffer_size=8M
read_rnd_buffer_size=4M
key_buffer_size=256M
max_connect_errors=10
myisam_sort_buffer_size=256M
slow_query_log = 1
slow_query_log_file = /var/log/mysql/mysql_slow.log
long_query_time = 2
log-queries-not-using-indexes
[mysqldump]
quick
max_allowed_packet=128M
[mysql]
no-auto-rehash
[isamchk]
key_buffer=128M
sort_buffer=128M
read_buffer=8M
write_buffer=8M

running the mysqltuner.sh gives me this output. what do i need to change to get MYSQL faster.

[[email protected] ~]# ./mysqltuner.pl
 >>  MySQLTuner 1.7.1 - Major Hayden <[email protected]>
 >>  Bug reports, feature requests, and downloads at http://mysqltuner.com/
 >>  Run with '--help' for additional options and output filtering
[--] Skipped version check for MySQLTuner script
[OK] Currently running supported MySQL version 10.2.18-MariaDB-log
[OK] Operating on 64-bit architecture
-------- Log file Recommendations ------------------------------------------------------------------
[--] Log file: /var/lib/mysql/server.err(110M)
[OK] Log file /var/lib/mysql/server.err exists
[OK] Log file /var/lib/mysql/server..err is readable.
[OK] Log file /var/lib/mysql/server.err is not empty
[!!] Log file /var/lib/mysql/server..err is bigger than 32 Mb
[!!] /var/lib/mysql/server..err contains 715196 warning(s).
[!!] /var/lib/mysql/server.err contains 4004 error(s).
[--] 1 start(s) detected in /var/lib/mysql/server.err
[--] 1) 2018-11-07 20:41:59 116544447940800 [Note] /usr/sbin/mysqld: ready for connections.
[--] 1 shutdown(s) detected in /var/lib/mysql/server.err
[--] 1) 2018-11-07 20:41:53 119839791691520 [Note] /usr/sbin/mysqld: Shutdown complete
-------- Storage Engine Statistics -----------------------------------------------------------------
[--] Status: +Aria +CSV +InnoDB +MEMORY +MRG_MyISAM +MyISAM +PERFORMANCE_SCHEMA +SEQUENCE
[--] Data in MyISAM tables: 18K (Tables: 4)
[--] Data in InnoDB tables: 4G (Tables: 2403)
[OK] Total fragmented tables: 0
[!!] failed to execute: SHOW TABLE STATUS FROM \`#mysql50#.ssh\`
[!!] FAIL Execute SQL / return code: 256
-------- Security Recommendations ------------------------------------------------------------------
[OK] There are no anonymous accounts for any database users
[OK] All database users have passwords assigned
[!!] There is no basic password file list!
-------- CVE Security Recommendations --------------------------------------------------------------
[--] Skipped due to --cvefile option undefined
-------- Performance Metrics -----------------------------------------------------------------------
[--] Up for: 11d 22h 20m 11s (849M q [823.756 qps], 2M conn, TX: 11764G, RX: 222G)
[--] Reads / Writes: 99% / 1%
[--] Binary logging is disabled
[--] Physical Memory     : 62.9G
[--] Max MySQL memory    : 42.2G
[--] Other process memory: 7.0G
[--] Total buffers: 8.9G global + 84.3M per thread (400 max threads)
[--] P_S Max memory usage: 445M
[--] Galera GCache Max memory usage: 0B
[OK] Maximum reached memory usage: 16.8G (26.72% of installed RAM)
[OK] Maximum possible memory usage: 42.2G (67.13% of installed RAM)
[OK] Overall possible memory usage with other process is compatible with memory available
[OK] Slow queries: 0% (6M/849M)
[OK] Highest usage of available connections: 22% (91/400)
[OK] Aborted connections: 0.01%  (147/2752649)
[!!] Query cache may be disabled by default due to mutex contention.
[OK] Query cache efficiency: 41.8% (591M cached / 1B selects)
[!!] Query cache prunes per day: 1642008
[OK] Sorts requiring temporary tables: 0% (0 temp sorts / 30M sorts)
[OK] No joins without indexes
[!!] Temporary tables created on disk: 57% (5M on disk / 8M total)
[OK] Thread cache hit rate: 99% (119 created / 2M connections)
[OK] Table cache hit rate: 29% (4K open / 16K opened)
[OK] Open file limit used: 0% (62/10K)
[OK] Table locks acquired immediately: 100% (8K immediate / 8K locks)
-------- Performance schema ------------------------------------------------------------------------
[--] Memory used by P_S: 445.5M
[--] Sys schema isn't installed.
-------- ThreadPool Metrics ------------------------------------------------------------------------
[--] ThreadPool stat is enabled.
[--] Thread Pool Size: 12 thread(s).
[--] Using default value is good enough for your version (10.2.18-MariaDB-log)
-------- MyISAM Metrics ----------------------------------------------------------------------------
[!!] Key buffer used: 18.3% (49M used / 268M cache)
[OK] Key buffer size / total MyISAM indexes: 256.0M/226.0K
[OK] Read Key buffer hit rate: 99.9% (225K cached / 146 reads)
[!!] Write Key buffer hit rate: 83.3% (48 cached / 40 writes)
-------- InnoDB Metrics ----------------------------------------------------------------------------
[--] InnoDB is enabled.
[--] InnoDB Thread Concurrency: 0
[OK] InnoDB File per table is activated
[OK] InnoDB buffer pool / data size: 8.0G/4.1G
[!!] Ratio InnoDB log file size / InnoDB Buffer pool size (50 %): 2.0G * 2/8.0G should be equal 25%
[!!] InnoDB buffer pool instances: 4
[--] Number of InnoDB Buffer Pool Chunk : 64 for 4 Buffer Pool Instance(s)
[OK] Innodb_buffer_pool_size aligned with Innodb_buffer_pool_chunk_size & Innodb_buffer_pool_instances
[OK] InnoDB Read buffer efficiency: 100.00% (694159282301 hits/ 694159542795 total)
[!!] InnoDB Write Log efficiency: 89.03% (64259682 hits/ 72176022 total)
[OK] InnoDB log waits: 0.00% (0 waits / 7916340 writes)
-------- AriaDB Metrics ----------------------------------------------------------------------------
[--] AriaDB is enabled.
[OK] Aria pagecache size / total Aria indexes: 128.0M/1B
[OK] Aria pagecache hit rate: 100.0% (15B cached / 4M reads)
-------- TokuDB Metrics ----------------------------------------------------------------------------
[--] TokuDB is disabled.
-------- XtraDB Metrics ----------------------------------------------------------------------------
[--] XtraDB is disabled.
-------- RocksDB Metrics ---------------------------------------------------------------------------
[--] RocksDB is disabled.
-------- Spider Metrics ----------------------------------------------------------------------------
[--] Spider is disabled.
-------- Connect Metrics ---------------------------------------------------------------------------
[--] Connect is disabled.
-------- Galera Metrics ----------------------------------------------------------------------------
[--] Galera is disabled.
-------- Replication Metrics -----------------------------------------------------------------------
[--] Galera Synchronous replication: NO
[--] No replication slave(s) for this server.
[--] This is a standalone server.
-------- Recommendations ---------------------------------------------------------------------------
General recommendations:
    /var/lib/mysql/server.erris > 32Mb, you should analyze why or implement a rotation log strategy such as logrotate!
    Control warning line(s) into /var/lib/mysql/server.err file
    Control error line(s) into /var/lib/mysql/server.err file
    Increasing the query_cache size over 128M may reduce performance
    Temporary table size is already large - reduce result set size
    Reduce your SELECT DISTINCT queries without LIMIT clauses
    Consider installing Sys schema from https://github.com/mysql/mysql-sys
Variables to adjust:
    query_cache_type (=0)
    query_cache_size (> 256M) [see warning above]
    innodb_log_file_size * innodb_log_files_in_group should be equals to 1/4 of buffer pool size (=4G) if possible.
    innodb_buffer_pool_instances(=8)
[[email protected] ~]#

wo what can i do to get this to work a bit faster?

 

[cPanelMichael]

Hello @leisegang,

Can you provide some more information about the current performance with MySQL on your system? For instance, is there a particular area that's performing poorly, are you are simply wanting to make sure your getting the best performance possible? Do your database-driven websites use a common CMS (e.g. WordPress), or does it vary?

Thank you.

 

[leisegang]

Its 95% wordpress sites. The big sites has wp-super cache enabled.
I tried a wp performance test and only got about 60 queries per second from that And mysql is using about 15% when I check daily process list in cpanel.

I need mysql to react faster because it seems like its always waiting for database.

All wordpress sites use innodb.

I just need some edits i believe on my config for sql.

 

[cPanelMichael]

Hello @leisegang,

You could try adjusting the individual variables noted under the Variables to adjust section at the end of the MySQL tuner results. Then, let MySQL run for 24 hours and run the tuner again to see if the results change.

You may also find the following links helpful:

What kind of stack are people using for speed?
WordPress Optimization/Server Optimization « WordPress Codex

Thank you.