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InnoDB Plugin 1.0 for MySQL 5.1 User's Guide
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9.6.4. Once the Plugin is installed, is it permanent?

The Plugin must loaded whenever the MySQL database server is started. As we saw earlier, there are several ways to configure MySQL to use the Plugin rather than the built-in InnoDB: in the option file, with mysqld command-line options, or with INSTALL statements after the server starts.

To ensure that you do not accidentally revert to the older InnoDB, be careful to carry any configuration file, command-line options, or post-startup commands forward in the future, such as when transitioning from a development system to a test system, setting up a replication slave, or when writing new mysqld startup scripts.

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