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--- mpiblast [2010/01/20 12:18] – 172.26.0.166
+++ mpiblast [2010/01/29 09:34] – 172.26.0.166
@@ Line 2: / Line 2: @@
 Parallel implementation of NCBI's BLAST algorithm.
-http://wiki.bioinformatics.ucdavis.edu/index.php/MPI_Blast
+  * http://wiki.bioinformatics.ucdavis.edu/index.php/MPI_Blast
-OpenMPI FAQ: http://www.open-mpi.org/faq/
+  * OpenMPI FAQ: http://www.open-mpi.org/faq/
 <code>$ mpiformatdb -i drosoph.nt -p F --nfrags=12</code>
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 The number of processes for an MPI job should be +1 of the number of CPUs because one process is used as the master to control the other jobs.
+===== Random Notes =====
+==== Number of Jobs ====
 https://lists.sdsc.edu/pipermail/npaci-rocks-discussion/2005-July/012726.html
 %%With formatdb, the number of nodes refers to compute node number.
 With mpiBLAST, np refers to number of processes, which isn't
@@ Line 78: / Line 82: @@
 process per processor. But the minimum number of processes for
 mpiBLAST is 3, no matter what your compute node number is.%%
+==== Number of Fragments ====
+Rule of thumb for large databases, one segment for every gigabyte (144 GB, 144 segments).
+  * http://lists.mpiblast.org/pipermail/users_lists.mpiblast.org/2009-August/000988.html
+  * https://lists.sdsc.edu/pipermail/npaci-rocks-discussion/2008-February/029231.html
+==== Incorrect mpiBLAST Version ====
+You're not crazy, it's a known issue: http://lists.mpiblast.org/pipermail/users_lists.mpiblast.org/2009-February/000933.html
+<code>$ rpmquery -a mpiblast
+mpiblast-1.5.0-pio
+$ mpiblast --version
+mpiblast version 1.4.0
+</code>
 ===== Links =====