Zhiliang Hu wrote: > I am new on using clusters. > > I have just installed mpiblast 1.4.0 with ncbi toolbox (June 2005) > from source codes on a linux cluster [x86_64/x86_64 (GNU/Linux), CentOS]. > The installation seemed to be successful. > > Now when I try the following: > >> /opt/openmpi.gcc/bin/mpirun -np 14 > /usr/local/bin/mpiblast -p blastn > -i /raid/pub/ncbi/blast/db/BTrsSNP > -d bta.genome.chr > -o out1 > -e 0.0000000001 > -W 38 -v 1 -b 1 > There are many possibilities. One of the best things to do is to run with the verbose/debug flags for MPI. I have found that most of the problems people encounter with mpiBLAST and MPI-HMMer are that MPI isn't being launched (correctly), or there is something non-functional with the MPI stack. I usually suggest some basic "hello world" tests to eliminate the MPI stack from consideration as a source of a problem. -- Joseph Landman, Ph.D Founder and CEO Scalable Informatics LLC, email: landman at scalableinformatics.com web : http://www.scalableinformatics.com http://jackrabbit.scalableinformatics.com phone: +1 734 786 8423 fax : +1 866 888 3112 cell : +1 734 612 4615