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What is mpiblast?

April 26, 2017mpiblast

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What is mpiblast?

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DO NOT RUN THIS FROM THE COMMAND LINE. Run it from the Web interface. It run a search on a split data file using the message passing interface (MPI). It copies the split data to the local hard drive of the compute node. No clean up is performed. If another user trys to run a query from the same database file, then a permissionerror will occur. To fix that problem, the /scratch data files on each compute node must be removed. Example: • mpirun -np 76 /common/bin/mpiblast -config-file=jmerritt-mpiblast.conf -p blastn -i Ecoli.1 -d nt > mpiblast-jmerritt.txt-jan18 Currently, mpiblast_cleanup does not work properly, therefore you must run the following to clean up the temporary disk on each compute node: • dsh -a ‘rm /scratch/*’ Notes: • You can not run mpiblast from the command line simultaneously with another search. This includes searches by the other users, including the same user! • Solutions to running mpiblast from the command line are being explored. • Use btbatchblast from the com