CHPC Software: mpiBLAST
mpiBLAST is the a parallelized version of the original NCBI BLAST, a sequence similarity search tools designed to provide a method for rapid searching of nucleotide and protein databases to support the comparison of new sequences against previously characterized sequences. mpiBlast segmenst the BLAST database and distributes it across cluster nodes, permitting BLAST queries to be processed on many nodes simultaneously.
- Version: 1.4.0-pio
- Machines: Arches
- Location: /uufs/arches/sys/pkg/mpiblast
The mpiBLAST installation includes three programs: mpiblast, mpiformatdb, and mpiblast_cleanup Before using mpiblast users must take the db of interest, in FASTA format, and process it using mpiformatdb, to divide the database into the desired number of segments.
Users must have a .ncbirc file in their home directory:
This .ncbirc file is used to configure storage paths that each node uses to access the database. A description of the paths can be found at http://mpiblast.lanl.gov/Docs.Install.html
A sample script for using mpiblast on arches:
Note that the number of nodes used MUST be one greater than the number of db segments.
For questions about and/or problems with the CHPC installation contact Anita Orendt.
For more information on mpiBLAST, including a user's guide, see: http://mpiblast.lanl.gov/
