MPIBLAST Program - Error And Solution.

1)$ /app/intel/impi/4.1.0.024/intel64/bin/mpirun -np 192 /app/mpiblast-n/bin/mpiblast -p blastx -i /scratch/sbag/K12.fa -d nr_again/nr -o /scratch/sbag/test_7july.txt -e 0.00001 -v 1 -m 9 -b 1
[cn1081:mpi_rank_47][error_sighandler] Caught error: Segmentation fault (signal 11)
[cn1081:mpi_rank_74][error_sighandler] Caught error: Segmentation fault (signal 11)
[cn1081:mpi_rank_114][error_sighandler] Caught error: Segmentation fault (signal 11)
[cn1081:mpi_rank_124][error_sighandler] Caught error: Segmentation fault (signal 11)
[cn1081:mpi_rank_130][error_sighandler] Caught error: Segmentation fault (signal 11)
APPLICATION TERMINATED WITH THE EXIT STRING: Segmentation fault (signal 11)
SOLUTION: Actually we are trying to run the 192 Processor Program on single node(12 Processor).
That is reason it is througing Segmentation Fault(signal 11) Error.After reducing into 12 processor then the problem has been resolved.
 Segmentation Error :Segmentation Fault Run Time Error | Trace Out Debugging Using gdb
2)$ mpirun -np 12 /app/mpiblast-n/bin/mpiblast -p blastx -i /scratch/sbag/K12.fa -d nr_again/nr -o /scratch/sbag/test_7july.txt -e 0.00001 -v 1 -m 9 -b 1
Total Execution Time: 251.998

3)[username@hostname]$ mpirun -np 12 /app/mpiblast-n/bin/mpiblast -p blastx -i /scratch/sbag/K12.fa -d nr_again/nr -o /scratch/sbag/test_7july.txt -e 0.00001 -v 1 -m 9 -b 1
[blastall] WARNING: LOC_Os01g01302_1: Unable to open nr.000.pin
[blastall] WARNING: LOC_Os01g01302_1: Unable to open nr.000.pin
[blastall] WARNING: LOC_Os01g01302_1: Unable to open nr6XTgKP.pin
[blastall] WARNING: LOC_Os01g01302_1: Unable to open nr.000.pin
[blastall] WARNING: LOC_Os01g01302_1: Unable to open nr.000.pin
[blastall] WARNING: LOC_Os01g01302_1: Unable to open nr6XTgKP.pin
[blastall] FATAL ERROR: LOC_Os01g01302_1: Database /scratch/sbag/nr_again/nr6XTgKP was not found or does not exist
2       0.104306        Bailing out with signal -1
[cli_2]: aborting job:
application called MPI_Abort(MPI_COMM_WORLD, 0) - process 2

PROBLEM : it is unable to find the NR database.
SOLUTION :After change the current working directory from /scratch/sbag to /scratch/sbag/nr_again then the problem has been resolved.

0 comments:

Post a Comment