[Bioclusters] new on using clusters: problem running mpiblast (2)

Zhiliang Hu hu at animalgenome.org
Fri Aug 31 15:55:42 EDT 2007


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
1       0.087774        Bailing out with signal 11
[node001:13274] MPI_ABORT invoked on rank 1 in communicator MPI_COMM_WORLD 
with errorcode 0
0       0.0933368       Bailing out with signal 15
[node001:13273] MPI_ABORT invoked on rank 0 in communicator MPI_COMM_WORLD 
with errorcode 0
13      0.13855 Bailing out with signal 15
[node001:13286] MPI_ABORT invoked on rank 13 in communicator 
MPI_COMM_WORLD with errorcode 0
2       0.0967469       Bailing out with signal 15
[node001:13275] MPI_ABORT invoked on rank 2 in communicator MPI_COMM_WORLD 
with errorcode 0
3       0.1011  Bailing out with signal 15
[node001:13276] MPI_ABORT invoked on rank 3 in communicator MPI_COMM_WORLD 
with errorcode 0
4       0.105819        Bailing out with signal 15
[node001:13277] MPI_ABORT invoked on rank 4 in communicator MPI_COMM_WORLD 
with errorcode 0
5       0.109716        Bailing out with signal 15
[node001:13278] MPI_ABORT invoked on rank 5 in communicator MPI_COMM_WORLD 
with errorcode 0
6       0.113549        Bailing out with signal 15
[node001:13279] MPI_ABORT invoked on rank 6 in communicator MPI_COMM_WORLD 
with errorcode 0
7       0.117464        Bailing out with signal 15
[node001:13280] MPI_ABORT invoked on rank 7 in communicator MPI_COMM_WORLD 
with errorcode 0
8       0.120678        Bailing out with signal 15
[node001:13281] MPI_ABORT invoked on rank 8 in communicator MPI_COMM_WORLD 
with errorcode 0
9       0.124318        Bailing out with signal 15
[node001:13282] MPI_ABORT invoked on rank 9 in communicator MPI_COMM_WORLD 
with errorcode 0
10      0.127826        Bailing out with signal 15
[node001:13283] MPI_ABORT invoked on rank 10 in communicator 
MPI_COMM_WORLD with errorcode 0
11      0.131605        Bailing out with signal 15
[node001:13284] MPI_ABORT invoked on rank 11 in communicator 
MPI_COMM_WORLD with errorcode 0
12      0.135169        Bailing out with signal 15
[node001:13285] MPI_ABORT invoked on rank 12 in communicator 
MPI_COMM_WORLD with errorcode 0

Does anyone has clues what this is and possibly point me to the right 
direction for a fix?

Thanks!
Zhiliang


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