how to speed up minimus2

[jjjscuedu]

Dear all,

I am now trying to use minimus2 to merge assembly results from two different assembly tools.

However, after running two weeks, minimus2 is still on the nucmer step.

Can anyone give me some suggestion about how to speed up it?

Thanks!

Jingjing

[krobison]

How big are your assemblies? What class machine are you running on?

[jjjscuedu]

My genome is about 1800Mb.

The machine of my server is about Red hat Enterprise Linux 6.3 64bit, 10CPU.