[BioBrew Users] : how to run mpiblast

Glen Otero gotero at linuxprophet.com
Fri Jul 16 01:47:26 EDT 2004


On Jul 15, 2004, at 10:37 PM, kenix y wrote:

> Regarding
> 3) edit my /etc/profile
>
> export BLASTPATH=/opt/BioBrew/NCBI/6.1.0/bin
> export MPIBLASTCONFIG=/home/bigcpuguest/mpiblast.conf
> export MPIRUN=/usr/bin/mpirun
>
> This is the correct one, forgot to edit the mail just now, sorry.
>
> I've move ecoli.nt to /home/bigcpuguest and chmod 777 it, but when I 
> mpiformatdb, it always gives me this:
>
> Moving fragments to /mnt/pvfs
> mv: cannot stat '/home/bigcpuguest/ecoli.nt.nal': No such file or 
> directory
> Created and moved 3 fragments.
>
> After I do that, there'll be a (null).nal in my /home/bigcpuguest.
> Is there anything to do with my mpiblast not being able to run?

What is the mpiformatdb command that you are running? How much space is 
on /mnt/pvfs?
>
> The output is still the same as my previous mail.
>
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Glen Otero, Ph.D.
Linux Prophet
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