Zhiliang Hu wrote: > I did more trials on fixing possible problems with "mpiblast" > installations. > > Now I have compiled > > mpiblast-1.4.0 along with ncbi tool kit (June 2005), with > mpicc --version > gcc (GCC) 4.1.1 20070105 (Red Hat 4.1.1-52) > > and run it with > > mpirun (Open MPI) 1.2.3, > > as following, and have errors: > >> /opt/openmpi.gcc/bin/mpirun -np 14 -machinefile >> /home/zhu/tests/new/machines /home/local/bin/mpiblast -p blastp -i > ./bait.fasta -d ecoli.aa > blastoutput.txt Please try a simple hello world test to verify that openmpi is working. Grab http://downloads.scalableinformatics.com/downloads/MPI/Makefile.hello and http://downloads.scalableinformatics.com/downloads/MPI/hello.c Modify the Makefile to verify that it works for you [landman at crunch-r.scalableinformatics.com:~/test1] 9 >make -f Makefile.hello /apps/openmpi123/pgi/bin/mpicc -c -g hello.c /apps/openmpi123/pgi/bin/mpicc -g -g -o hello.exe hello.o -lm and run it [landman at crunch-r.scalableinformatics.com:~/test1] 10 >/apps/openmpi123/pgi/bin/mpirun -v -np 2 ./hello.exe I am the master thread and I have a tid of 0 I am a worker thread, number 1 out of 2 total If this does not work, it is not likely that mpiblast will work. Joe -- 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