[Bioclusters] error while running mpiblast

kalyani kalyani at atc.tcs.co.in
Mon Feb 28 01:45:07 EST 2005


 Hi all!
 Iam running mpiblast with the following command.
  mpirun -np 4 ~/bin/mpiblast -p blastp -d pir.fasta -i 
 /home/kalyani/hmmer-2.3.2/src/seq1 -o mpiblastoutput.txt
 
 Iam getting the following error. Can any one of you help me in finding out 
the 
 error. Iam attaching the .ncbirc file
 Thanks in Advance
 Kalyani
 
 [blastall] ERROR: seq31: BlastKarlinBlkGappedCalc: PAM30 is a supported 
matrix
 [blastall] ERROR: seq31: BlastKarlinBlkGappedCalc: PAM70 is a supported 
matrix
 [blastall] ERROR: seq32: BlastKarlinBlkGappedCalc:  èÑ is not a supported 
 matrix
 [blastall] ERROR: seq32: BlastKarlinBlkGappedCalc: BLOSUM80 is a supported 
 matrix
 [blastall] ERROR: seq32: BlastKarlinBlkGappedCalc: BLOSUM62 is a supported 
 matrix
 [blastall] ERROR: seq32: BlastKarlinBlkGappedCalc: BLOSUM50 is a supported 
 matrix
 [blastall] ERROR: seq32: BlastKarlinBlkGappedCalc: BLOSUM45 is a supported 
 matrix
 [blastall] ERROR: seq32: BlastKarlinBlkGappedCalc: PAM250 is a supported 
 matrix
 [blastall] ERROR: seq32: BlastKarlinBlkGappedCalc: BLOSUM62_20 is a supported 
 matrix
 [blastall] ERROR: seq32: BlastKarlinBlkGappedCalc: BLOSUM90 is a supported 
 matrix
 [blastall] ERROR: seq32: BlastKarlinBlkGappedCalc: PAM30 is a supported 
matrix
 [blastall] ERROR: seq32: BlastKarlinBlkGappedCalc: PAM70 is a supported 
matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: â
                                                             is not a 
supported 
 matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: BLOSUM80 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: BLOSUM62 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: BLOSUM50 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: BLOSUM45 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: PAM250 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: BLOSUM62_20 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: BLOSUM90 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: PAM30 is a 
supported 
 matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: PAM70 is a 
supported 
 matrix
 2       0.0277332       Bailing out with signal 11
 MPI: Program /home/kalyani/bin/mpiblast, Rank 2, Process 9189 called 
 MPI_Abort(<communicator>, 0)
 
 MPI: --------stack traceback-------
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: â
                                                             is not a 
supported 
 matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: BLOSUM80 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: BLOSUM62 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: BLOSUM50 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: BLOSUM45 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: PAM250 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: BLOSUM62_20 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: BLOSUM90 is a 
 supported matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: PAM30 is a 
supported 
 matrix
 [blastall] ERROR: lcl|tmpseq_0: BlastKarlinBlkGappedCalc: PAM70 is a 
supported 
 matrix
 3       0.0337366       Bailing out with signal 11
 
 
########### .nbirc file contains
 [NCBI]
 Data=/home/kalyani/toolkit/ncbi/data
 
 [BLAST]
 BLASTDB=/home/kalyani/toolkit/ncbi
 BLASTMAT=/home/kalyani/toolkit/ncbi/data
 
 [mpiBLAST]
 Shared=/home/kalyani/toolkit/ncbi
 Local=/home/kalyani/toolkit/ncbi


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