[Bioclusters] Re: new on using clusters: problem running mpiblast (2)

[Joe Landman]

Zhiliang Hu wrote:
> Thanks Joe!
> 
> I tested with 'which' and 'whereis', they do find 'orted' on my system.
> So I tried again with full path to "mpirun" (i am sorry I should have
> done this earlier):
> 
>> /opt/openmpi.gcc/bin/mpirun -np 3 -machinefile machines 
> /home/local/bin/mpiblast -p blastp -i ./bait.fasta -d ecoli.aa

Lets have you add '-d 4' to the mpirun line in both cases.

Also, I might suggest forcing it to use the ethernet if possible.  You
would need to add in

	-mca btl tcp

to make that happen.

-- 
Joseph Landman, Ph.D
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Scalable Informatics LLC,
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