[Bioclusters] mpiBLAST

Joe Landman bioclusters@bioinformatics.org
14 May 2003 11:44:26 -0400


On Wed, 2003-05-14 at 11:02, Osborne, John wrote:

> 1)Rename (null).pal to nr.pal
> 2)Replace all (null)'s in nr.pal with nr
> 3)Add the substitution matrixes directly to my home directory,
> mpiblast can not seem to find my data directory despite it being
> specified in the .ncbirc file.  Maybe I have to add this to mpi.conf?
> If it wasn't for the debug option I don't think I would have ever found
> this, wise of the authors to include that one in there.

Note:  For some reason, I seem to remember needing to put a
"Data=/path/to/scoring/matrices" as the third line in mpiblast.conf.  I
make sure this is a shared path.

> I think I can probably solve 3 and 4 with some more time, but I have
> spent more than a few hours on getting this thing to work already.  I'm
> still not sure where the original mpiformatdb null problem arose.

What was your original mpiformatdb line? 

-- 
Joseph Landman, Ph.D
Scalable Informatics LLC,
email: landman@scalableinformatics.com
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