We test with Oracle, MySQL and PostgreSQL, and have run the databases on both Windows and Linux (same with JBoss, running it on Windows and Linux). Usually we run matching OSes, that is, if we have JBoss on Linux we also have the database on Linux, but we have ocassionally run the database on the other OS. It usually depends on what hardware we have available and what OS is currently installed on it. Since the performance we have seen is roughly similar for any given software under either OS, we are fairly agnostic as to which OS we use. Except that on occasion we find that a particular Linux distro won't run on a 32 processor system, so we go with Windows or another Linux distro (we run RHEL 4 and SLES 9).
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