Yes, it's possible. Just try not to let them step on each other's toes.
http://www.immutablesecurity.com/index.php/2010/10/22/2woo-day-6-running-multiple-instances-on-one-box/
(first link in google)

On Wed, Oct 19, 2011 at 10:27 AM, Sherman Butler <[email protected]> wrote:
> I'm wondering if it's possible to have multiple instances of server or
> client running on the same host?  Systems are x86 intel running x86 Solaris,
> no windows systems involved.
> We have two different groups of people using OSSEC for different issues.
>  One group are the system admins and just want to see the basic system
> alerts and errors that are logged through syslog, the other group is the
> application admins and they want to see the error messages from their
> applications which also log to syslog.  The problem is the number of
> application messages making it into syslog and therefore to OSSEC make it
> very difficult to pick out the relevant alerts the system admins would like
> to see.
> We thought if we could set up two instances of server and client we could
> separate the differing requirements.  Anyone know if this is possible?
> Sherman Butler
>
>

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