Zorro Run time

[Scott Geib]

Hi,
I am trying Zorro on a eukaryotic genome (size ~300 Mb). I am finding
the pipeline is taking a very long time to run, it is still on the
nucmer step after several days (much longer than a stand alone mummer
alignment would typically take). Is there a reason for this? Is
there a way to increase the threadedness of any of the steps of the
pipeline? We have substaintial resources on this node that could be
utilized.

Thanks
Scott

[Nathaniel Street]

I can second this. I've now been waiting for over two weeks at the
nucmer stage using zorro to merge an ABySS and newbler assembly from a
450 Mbp genome.

If there are any tips to speed up runtime that would be great.

Nate