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mpiblast [2010/01/19 09:18] – 172.26.0.166mpiblast [2010/01/19 11:10] – 172.26.0.166
Line 57: Line 57:
 user    12m13.891s user    12m13.891s
 sys     0m56.631s</code> sys     0m56.631s</code>
 +
 +With 12 jobs, sge, mpiblast, 6 nodes did it in:
 +<code>$ less mpiblast_sge.sh.o5515
 +Total Execution Time: 98.3068</code>
  
 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. 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.
 +
 ===== Links ===== ===== Links =====
   * Submitting MPI jobs using SGE: http://www.shef.ac.uk/wrgrid/documents/gridengine.html   * Submitting MPI jobs using SGE: http://www.shef.ac.uk/wrgrid/documents/gridengine.html
- +  * mpiBLAST Guide: http://www.mpiblast.org/Docs/Guide 
-<code>$ sudo mkdir -p /state/           +  * Updating the BLAST databases: http://www.ncbi.nlm.nih.gov/blast/docs/update_blastdb.pl
-$ sudo ln -s /scratch/ /state/partition1 +
-$ sudo chmod 777 /scratch/ +
-$ sudo chmod o+t /scratch/</code>+