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How does one fix this MySQL zero day vulnerability on Ubuntu 14.04? Question Question

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MySQL always crash after upgrade.

Posted October 6, 2016 2k views
UbuntuMySQL

I have an issue after I upgrade MYSQL from 5.5 to 5.6 cause I want security update.
I using Vesta CP on my droplet to hold 3 Wordpress websites.

My droplet:
Ubuntu 14.04.4 x32
Memory 512 MB
Disk 20 GB

2016-10-06 15:49:07 5080 [Note] Plugin 'FEDERATED' is disabled.
2016-10-06 15:49:07 5080 [ERROR] Function 'innodb' already exists
2016-10-06 15:49:07 5080 [Warning] Couldn't load plugin named 'innodb' with soname 'ha_innodb.so'.
2016-10-06 15:49:07 5080 [ERROR] Function 'federated' already exists
2016-10-06 15:49:07 5080 [Warning] Couldn't load plugin named 'federated' with soname 'ha_federated.so'.
2016-10-06 15:49:07 5080 [ERROR] Function 'blackhole' already exists
2016-10-06 15:49:07 5080 [Warning] Couldn't load plugin named 'blackhole' with soname 'ha_blackhole.so'.
2016-10-06 15:49:07 5080 [ERROR] Function 'archive' already exists
2016-10-06 15:49:07 5080 [Warning] Couldn't load plugin named 'archive' with soname 'ha_archive.so'.
2016-10-06 15:49:07 5080 [Note] InnoDB: Using atomics to ref count buffer pool pages
2016-10-06 15:49:07 5080 [Note] InnoDB: The InnoDB memory heap is disabled
2016-10-06 15:49:07 5080 [Note] InnoDB: Mutexes and rw_locks use GCC atomic builtins
2016-10-06 15:49:07 5080 [Note] InnoDB: Memory barrier is not used
2016-10-06 15:49:07 5080 [Note] InnoDB: Compressed tables use zlib 1.2.8
2016-10-06 15:49:07 5080 [Note] InnoDB: Using Linux native AIO
2016-10-06 15:49:07 5080 [Note] InnoDB: Not using CPU crc32 instructions
2016-10-06 15:49:07 5080 [Note] InnoDB: Initializing buffer pool, size = 20.0M
2016-10-06 15:49:07 5080 [Note] InnoDB: Completed initialization of buffer pool
2016-10-06 15:49:07 5080 [Note] InnoDB: Highest supported file format is Barracuda.
2016-10-06 15:49:07 5080 [Note] InnoDB: The log sequence numbers 114578589 and 114578589 in ibdata files do not match the log sequence number 115317197 in the ib_logfiles!
2016-10-06 15:49:07 5080 [Note] InnoDB: Database was not shutdown normally!
2016-10-06 15:49:07 5080 [Note] InnoDB: Starting crash recovery.
2016-10-06 15:49:07 5080 [Note] InnoDB: Reading tablespace information from the .ibd files...
2016-10-06 15:49:07 5080 [Note] InnoDB: Restoring possible half-written data pages
2016-10-06 15:49:07 5080 [Note] InnoDB: from the doublewrite buffer...
2016-10-06 15:49:07 5080 [Note] InnoDB: 128 rollback segment(s) are active.
2016-10-06 15:49:07 5080 [Note] InnoDB: Waiting for purge to start
2016-10-06 15:49:08 5080 [Note] InnoDB: 5.6.33 started; log sequence number 115317197
2016-10-06 15:49:08 5080 [Note] Server hostname (bind-address): '*'; port: 3306
2016-10-06 15:49:08 5080 [Note] IPv6 is available.
2016-10-06 15:49:08 5080 [Note]   - '::' resolves to '::';
2016-10-06 15:49:08 5080 [Note] Server socket created on IP: '::'.
2016-10-06 15:49:08 5080 [Note] Event Scheduler: Loaded 0 events
2016-10-06 15:49:08 5080 [Note] /usr/sbin/mysqld: ready for connections.
Version: '5.6.33-0ubuntu0.14.04.1'  socket: '/var/run/mysqld/mysqld.sock'  port: 3306  (Ubuntu)

How I should do to fix this issue ?
It happen many times after the server do cron job to backup.
Thanks :)

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nsa2969
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1 answer
nsa2969 October 6, 2016

After I config my.conf from https://github.com/serghey-rodin/vesta/blob/master/install/ubuntu/14.04/mysql/my-small.cnf

I got this error.

2016-10-06 16:22:08 6739 [Note] Plugin 'FEDERATED' is disabled.
2016-10-06 16:22:08 6739 [ERROR] Function 'innodb' already exists
2016-10-06 16:22:08 6739 [Warning] Couldn't load plugin named 'innodb' with soname 'ha_innodb.so'.
2016-10-06 16:22:08 6739 [ERROR] Function 'federated' already exists
2016-10-06 16:22:08 6739 [Warning] Couldn't load plugin named 'federated' with soname 'ha_federated.so'.
2016-10-06 16:22:08 6739 [ERROR] Function 'blackhole' already exists
2016-10-06 16:22:08 6739 [Warning] Couldn't load plugin named 'blackhole' with soname 'ha_blackhole.so'.
2016-10-06 16:22:08 6739 [ERROR] Function 'archive' already exists
2016-10-06 16:22:08 6739 [Warning] Couldn't load plugin named 'archive' with soname 'ha_archive.so'.
2016-10-06 16:22:08 6739 [Note] InnoDB: Using atomics to ref count buffer pool pages
2016-10-06 16:22:08 6739 [Note] InnoDB: The InnoDB memory heap is disabled
2016-10-06 16:22:08 6739 [Note] InnoDB: Mutexes and rw_locks use GCC atomic builtins
2016-10-06 16:22:08 6739 [Note] InnoDB: Memory barrier is not used
2016-10-06 16:22:08 6739 [Note] InnoDB: Compressed tables use zlib 1.2.8
2016-10-06 16:22:08 6739 [Note] InnoDB: Using Linux native AIO
2016-10-06 16:22:08 6739 [Note] InnoDB: Not using CPU crc32 instructions
2016-10-06 16:22:08 6739 [Note] InnoDB: Initializing buffer pool, size = 128.0M
InnoDB: mmap(136019968 bytes) failed; errno 12
2016-10-06 16:22:08 6739 [ERROR] InnoDB: Cannot allocate memory for the buffer pool
2016-10-06 16:22:08 6739 [ERROR] Plugin 'InnoDB' init function returned error.
2016-10-06 16:22:08 6739 [ERROR] Plugin 'InnoDB' registration as a STORAGE ENGINE failed.
2016-10-06 16:22:08 6739 [ERROR] Unknown/unsupported storage engine: InnoDB
2016-10-06 16:22:08 6739 [ERROR] Aborting

2016-10-06 16:22:08 6739 [Note] Binlog end
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'partition'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_SYS_DATAFILES'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_SYS_TABLESPACES'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_SYS_FOREIGN_COLS'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_SYS_FOREIGN'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_SYS_FIELDS'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_SYS_COLUMNS'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_SYS_INDEXES'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_SYS_TABLESTATS'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_SYS_TABLES'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_FT_INDEX_TABLE'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_FT_INDEX_CACHE'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_FT_CONFIG'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_FT_BEING_DELETED'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_FT_DELETED'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_FT_DEFAULT_STOPWORD'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_METRICS'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_BUFFER_POOL_STATS'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_BUFFER_PAGE_LRU'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_BUFFER_PAGE'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_CMP_PER_INDEX_RESET'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_CMP_PER_INDEX'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_CMPMEM_RESET'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_CMPMEM'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_CMP_RESET'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_CMP'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_LOCK_WAITS'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_LOCKS'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'INNODB_TRX'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'ARCHIVE'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'BLACKHOLE'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'PERFORMANCE_SCHEMA'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'MyISAM'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'CSV'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'MEMORY'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'MRG_MYISAM'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'sha256_password'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'mysql_old_password'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'mysql_native_password'
2016-10-06 16:22:08 6739 [Note] Shutting down plugin 'binlog'
2016-10-06 16:22:08 6739 [Note] /usr/sbin/mysqld: Shutdown complete
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