Percona Server for MySQL In-Place Upgrading Guide: From 5.7 to 8.0

Percona Server for MySQL In-Place Upgrading Guide: From 5.7 to 8.0

In-place upgrades are those which are done using the existing data in the server. Generally speaking, this is stopping the server, installing the new server and starting it with the same data files. While they may not be suitable for high-complexity environments, they may be adequate for many scenarios.

The following is a summary of the more relevant changes in the 8.0 series. It is strongly recommended that you read the following guides as they contain the list of incompatible changes that could cause automatic upgrade to fail:

Starting from the release 8.0.15-5, Percona Server for MySQL uses the upstream implementation of binary log encryption. The variable encrypt_binlog is removed and the related command line option --encrypt_binlog is not supported. It is important that you remove the encrypt_binlog variable from your configuration file before you attempt to upgrade from either another release in the Percona Server for MySQL 8.0 series or Percona Server for MySQL 5.7. Otherwise, a server boot error reports an unknown variable. The implemented binary log encryption is compatible with the old format: the binary log encrypted in a previous version of MySQL 8.0 series or Percona Server for MySQL are supported.

See also

MySQL Documentation

Warning

Do not upgrade from 5.7 to 8.0 on a crashed instance. If the server instance has crashed, crash recovery should be run before proceeding with the upgrade.

Note that in Percona Server for MySQL 8.0, the ROW FORMAT clause is not supported in CREATE TABLE and ALTER TABLE statements. Instead, use the tokudb_row_format variable to set the default compression algorithm.

With partitioned tables that use the TokuDB or MyRocks storage engine, the upgrade only works with native partitioning.

Upgrading using the Percona repositories

The easiest and recommended way of installing - where possible - is by using the Percona repositories.

Instructions for enabling the repositories in a system can be found in:

DEB-based distributions

Run the following commands as root or by using the sudo command

Having done the full backup (or dump if possible), stop the server running and proceed to do the modifications needed in your configuration file, as explained at the beginning of this guide.

Note

If you are running Debian/Ubuntu system with systemd as the default system and service manager you can invoke the above command with systemctl instead of service. Currently both are supported.

Then install the new server with:

Enable the repository:

$ percona-release enable ps-80 release
$ apt-get update

$ apt-get install percona-server-server

If you used or TokuDB or MyRocks storage engines

The TokuDB and MyRocks storage engines are installed separately. The percona-server-tokudb package installs both of them.

$ apt-get install percona-server-tokudb

If you only used the MyRocks storage engine in Percona Server for MySQL 5.7, install the percona-server-rocksdb package.

$ apt-get install percona-server-rocksdb

Deprecated since version 8.0.16-7.

The mysql_upgrade was deprecated as of Percona Server for MySQL 8.0.16-7. The functionality was moved to the mysqld binary which automatically runs the upgrade process, if needed. If you attempt to run mysql_upgrade, no operation happens and a message stating, “The mysql_upgrade client is now deprecated. The actions executed by the upgrade client are now done by the server.”

See also

MySQL Upgrade Process Upgrades

If you are upgrading to a Percona Server for MySQL version before 8.0.16-7, the installation script will NOT run automatically mysql_upgrade as it was the case in previous versions. You’ll need to run the command manually and restart the service after it’s finished.

$ mysql_upgrade

Checking if update is needed.
Checking server version.
Running queries to upgrade MySQL server.
Checking system database.
mysql.columns_priv                                 OK
mysql.db                                           OK
mysql.engine_cost                                  OK
...
Upgrade process completed successfully.
Checking if update is needed.

$ service mysql restart

RPM-based distributions

Run the following commands as root or by using the sudo command

Having done the full backup (and dump if possible), stop the server: service mysql stop and check your installed packages with rpm -qa | grep Percona-Server

Note

If you are running RHEL/CentOS system with systemd as the default system and service manager you can invoke the above command with systemctl instead of service. Currently both are supported.

Output of rpm -qa | grep Percona-Server

Percona-Server-57-debuginfo-5.7.10-3.1.el7.x86_64
Percona-Server-client-57-5.7.10-3.1.el7.x86_64
Percona-Server-devel-57-5.7.10-3.1.el7.x86_64
Percona-Server-server-57-5.7.10-3.1.el7.x86_64
Percona-Server-shared-57-5.7.10-3.1.el7.x86_64
Percona-Server-shared-compat-57-5.7.10-3.1.el7.x86_64
Percona-Server-test-57-5.7.10-3.1.el7.x86_64
Percona-Server-tokudb-57-5.7.10-3.1.el7.x86_64

After checking, proceed to remove them without dependencies:

$ rpm -qa | grep Percona-Server | xargs rpm -e --nodeps

It is important that you remove them without dependencies as many packages may depend on these (as they replace mysql) and will be removed if omitted.

Important

/etc/my.cnf Backed Up in CentOS 7

In CentOS 7, the /etc/my.cnf configuration file is backed up when you uninstall the Percona Server for MySQL packages with the rpm -e --nodeps command.

The backup file is stored in the same directory with the _backup suffix followed by a timestamp: etc/my.cnf_backup-20181201-1802.

Substitute grep '^mysql-' for grep 'Percona-Server' in the previous command and remove the listed packages.

You will have to install the percona-server-server package:

$ yum install percona-server-server

The TokuDB and MyRocks storage engines are installed separately.

If you used TokuDB in Percona Server for MySQL 5.7, install the percona-server-tokudb package when doing the upgrade. This command installs both

$ yum install percona-server-tokudb

If you used the MyRocks storage engine in Percona Server for MySQL 5.7, install the percona-server-rocksdb package:

$ yum install percona-server-rocksdb

Once installed, proceed to modify your configuration file - my.cnf - and reinstall the plugins if necessary.

Note

If you are using TokuDB storage engine you’ll need to comment out all the TokuDB specific variables in your configuration file(s) before starting the server, otherwise the server won’t be able to start. RHEL/CentOS 7 automatically backs up the previous configuration file to /etc/my.cnf.rpmsave and installs the default my.cnf. After upgrade/install process completes you can move the old configuration file back (after you remove all the unsupported system variables).

Deprecated since version 8.0.16-7.

The mysql_upgrade was deprecated as of Percona Server for MySQL 8.0.16-7. The functionality was moved to the mysqld binary which automatically runs the upgrade process, if needed. If you attempt to run mysql_upgrade, no operation happens and a message stating, “The mysql_upgrade client is now deprecated. The actions executed by the upgrade client are now done by the server.”

See also

MySQL Upgrade Process Upgrades

If you are upgrading to a Percona Server for MySQL version before 8.0.16-7, you can start the mysql service using service mysql start and using mysql_upgrade to migrate to the new grant tables, it will rebuild the indexes needed and do the modifications needed:

$ mysql_upgrade

Output

Checking if update is needed.
Checking server version.
Running queries to upgrade MySQL server.
Checking system database.
mysql.columns_priv                                 OK
mysql.db                                           OK
...
pgrade process completed successfully.
Checking if update is needed.

Once this is done, just restart the server as usual: service mysql restart

After the service has been successfully restarted you can use the new Percona Server for MySQL 8.0.

Upgrading using Standalone Packages

DEB-based distributions

Having done the full backup (and dump if possible), stop the server. Run this command as root or by using the sudo command: /etc/init.d/mysql stop and remove the installed packages with their dependencies: apt-get autoremove percona-server percona-client

Once removed, proceed to do the modifications needed in your configuration file, as explained at the beginning of this guide.

Then, download the following packages for your architecture:

  • percona-server-server
  • percona-server-client
  • percona-server-common
  • libperconaserverclient21

The following example will download Percona Server for MySQL 8.0.13-3 release packages for Debian 9.0:

$ wget https://www.percona.com/downloads/Percona-Server-8.9/Percona-Server-8.0.13-3/binary/debian/stretch/x86_64/percona-server-8.0.13-3-r63dafaf-stretch-x86_64-bundle.tar

You should then unpack the bundle to get the packages: tar xvf Percona-Server-8.0.13-3-r63dafaf-stretch-x86_64-bundle.tar

After you unpack the bundle you should see the following packages:

$ ls *.deb

libperconaserverclient21-dev_8.0.13-3-1.stretch_amd64.deb
libperconaserverclient21_8.0.13-3-1.stretch_amd64.deb
percona-server-dbg_8.0.13-3-1.stretch_amd64.deb
percona-server-client_8.0.13-3-1.stretch_amd64.deb
percona-server-common_8.0.13-3-1.stretch_amd64.deb
percona-server-server_8.0.13-3-1.stretch_amd64.deb
percona-server-source_8.0.13-3-1.stretch_amd64.deb
percona-server-test_8.0.13-3-1.stretch_amd64.deb
percona-server-tokudb_8.0.13-3-1.stretch_amd64.deb

Now you can install Percona Server for MySQL by running:

$ sudo dpkg -i *.deb

This will install all the packages from the bundle. Another option is to download/specify only the packages you need for running Percona Server for MySQL installation (libperconaserverclient21_8.0.13-3.stretch_amd64.deb, percona-server-client-8.0.13-3.stretch_amd64.deb, percona-server-common-8.0.13-3.stretch_amd64.deb, and percona-server-server-8.0.13-3.stretch_amd64.deb. Optionally you can install percona-server-tokudb-8.0.13-3.stretch_amd64.deb if you want TokuDB storage engine).

Note

Percona Server for MySQL 8.0 comes with the TokuDB storage engine. You can find more information on how to install and enable the TokuDB storage in the TokuDB Installation guide.

Warning

When installing packages manually, you must resolve all the dependencies and install missing packages yourself. At least the following packages should be installed before installing Percona Server for MySQL 8.0: libmecab2, libjemalloc1, zlib1g-dev, and libaio1.

Deprecated since version 8.0.16-7.

The mysql_upgrade was deprecated as of Percona Server for MySQL 8.0.16-7. The functionality was moved to the mysqld binary which automatically runs the upgrade process, if needed. If you attempt to run mysql_upgrade, no operation happens and a message stating, “The mysql_upgrade client is now deprecated. The actions executed by the upgrade client are now done by the server.”

See also

MySQL Upgrade Process Upgrades

If you are upgrading to a Percona Server for MySQL version before 8.0.16-7, the installation script will not run automatically mysql_upgrade, so you must run it yourself and restart the service afterwards.

RPM-based distributions

Having done the full backup (and dump if possible), stop the server (command: service mysql stop) and check your installed packages:

$ rpm -qa | grep Percona-Server

Percona-Server-57-debuginfo-5.7.10-3.1.el7.x86_64
Percona-Server-client-57-5.7.10-3.1.el7.x86_64
Percona-Server-devel-57-5.7.10-3.1.el7.x86_64
Percona-Server-server-57-5.7.10-3.1.el7.x86_64
Percona-Server-shared-57-5.7.10-3.1.el7.x86_64
Percona-Server-shared-compat-57-5.7.10-3.1.el7.x86_64
Percona-Server-test-57-5.7.10-3.1.el7.x86_64
Percona-Server-tokudb-57-5.7.10-3.1.el7.x86_64

You may have the shared-compat package, which is for compatibility purposes.

After checked that, proceed to remove them without dependencies: rpm -qa | grep percona-server | xargs rpm -e --nodeps

It is important that you remove it without dependencies as many packages may depend on these (as they replace mysql) and will be removed if ommited.

Note that this procedure is the same for upgrading from MySQL 5.7 to Percona Server for MySQL 8.0, just grep '^mysql-' instead of Percona-Server and remove them.

Download the packages of the desired series for your architecture from the download page. The easiest way is to download bundle which contains all the packages. The following example will download Percona Server for MySQL 8.0.13-3 release packages for CentOS 7:

$ wget https://www.percona.com/downloads/Percona-Server-8.0/Percona-Server-8.0.13-3/binary/redhat/7/x86_64/Percona-Server-8.0.13-3-r63dafaf-el7-x86_64-bundle.tar

You should then unpack the bundle to get the packages: tar xvf Percona-Server-8.0.13-3-r63dafaf-el7-x86_64-bundle.tar

After you unpack the bundle you should see the following packages: ls *.rpm

Output

percona-server-debuginfo-8.0.13-3.1.el7.x86_64.rpm
percona-server-client-8.0.13-3.1.el7.x86_64.rpm
percona-server-devel-8.0.13-3.1.el7.x86_64.rpm
percona-server-server-8.0.13-3.1.el7.x86_64.rpm
percona-server-shared-8.0.13-3.1.el7.x86_64.rpm
percona-server-shared-compat-8.0.13-3.1.el7.x86_64.rpm
percona-server-test-8.0.13-3.1.el7.x86_64.rpm
percona-server-tokudb-8.0.13-3.1.el7.x86_64.rpm

Now, you can install Percona Server for MySQL 8.0 by running:

rpm -ivh percona-server-server_8.0.13-3.el7.x86_64.rpm \
percona-server-client_8.0.13-3.el7.x86_64.rpm \
percona-server-shared_8.0.13-3.el7.x86_64.rpm

This will install only packages required to run the Percona Server for MySQL 8.0. Optionally you can install TokuDB storage engine by adding the percona-server-tokudb-8.0.13-3.el7.x86_64.rpm to the command above. You can find more information on how to install and enable the TokuDB storage in the TokuDB Installation guide.

To install all the packages (for debugging, testing, etc.) you should run: rpm -ivh *.rpm

Note

When installing packages manually like this, you must resolve all the dependencies and install missing packages yourself.

Once installed, proceed to modify your configuration file - my.cnf - and install the plugins if necessary. If you are using TokuDB storage engine you must comment out all the TokuDB specific variables in your configuration file(s) before starting the server, otherwise server will not start. RHEL/CentOS 7 automatically backs up the previous configuration file to /etc/my.cnf.rpmsave and installs the default my.cnf. After upgrade/install process completes you can move the old configuration file back (after you remove all the unsupported system variables).

As the schema of the grant table has changed, the server must be started without reading them: service mysql start

Deprecated since version 8.0.16-7.

The mysql_upgrade was deprecated as of Percona Server for MySQL 8.0.16-7. The functionality was moved to the mysqld binary which automatically runs the upgrade process, if needed. If you attempt to run mysql_upgrade, no operation happens and a message stating, “The mysql_upgrade client is now deprecated. The actions executed by the upgrade client are now done by the server.”

See also

MySQL Upgrade Process Upgrades

If you are upgrading to a Percona Server for MySQL version before 8.0.16-7, then, use mysql_upgrade to migrate to the new grant tables. It will rebuild the indexes needed and do the modifications needed: mysql_upgrade

After this is done, just restart the server as usual: service mysql restart

Upgrading from Systems that Use the TokuDB or MyRocks Storage Engine and Partitioned Tables

Due to the limitation imposed by MySQL, it is the storage engine that must provide support for partitioning. MySQL 8.0 only provides support for partitioned table for the InnoDB storage engine.

If you use partitioned tables with the TokuDB or MyRocks storage engine, the upgrade may fail if the native partitioning (i.e. provided by the storage engine itself) is not enabled.

Before you attempt the upgrade, check whether or not you have any tables that do not use the native partitioning.

$ mysqlcheck -u root --all-databases --check-upgrade

If such tables are found mysqlcheck issues a warning:

Output of mysqlcheck detecting a table that do not use the native partitioning

| comp_test.t1_RocksDB_lz4     OK
| warning  : The partition engine, used by table 'comp_test.t1_RocksDB_lz4',
| is deprecated and will be removed in a future release. Please use native partitioning instead.

In this case comp_test.t1_RocksDB_lz4 is not using native partitions. To switch, enable either rocksdb_enable_native_partition or tokudb_enable_native_partition variable depending on the storage engine that you are using. Then restart the server. Your next step is to alter the tables that are not using the native partitioning with the UPGRADE PARTITIONING clause:

ALTER TABLE comp_test.t1_RocksDB_lz4 UPGRADE PARTITIONING

In this example, the table comp_test.t1_RocksDB_lz4 to native partitioning. Unless you complete these steps for each table that mysqlcheck complained about, the upgrade to MySQL 8.0 will fail and your error log will contain messages like:

2018-12-17T18:34:14.152660Z 2 [ERROR] [MY-013140] [Server] The 'partitioning' feature is not available; you need to remove '--skip-partition' or use MySQL built with '-DWITH_PARTITION_STORAGE_ENGINE=1'
2018-12-17T18:34:14.152679Z 2 [ERROR] [MY-013140] [Server] Can't find file: './comp_test/t1_RocksDB_lz4.frm' (errno: 0 - Success)
2018-12-17T18:34:14.152691Z 2 [ERROR] [MY-013137] [Server] Can't find file: './comp_test/t1_RocksDB_lz4.frm' (OS errno: 0 - Success)

See also

MySQL Documentation: Partitioning Limitations Relating to Storage Engines
https://dev.mysql.com/doc/refman/8.0/en/partitioning-limitations-storage-engines.html

Performing a Distribution upgrade in-place on a System with installed Percona packages

The recommended process for performing a distribution upgrade on a system with the Percona packages installed is the following:

  1. Record the installed Percona packages
  2. Backup the data and configurations
  3. Uninstall the Percona packages without removing the configurations or data
  4. Perform the upgrade by following the distribution upgrade instructions
  5. Reboot the system
  6. Install the Percona packages intended for the upgraded version of the distribution
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