An addendum:
The fast e-value approximation is disabled by default in the cvs code.
To use it, add --fast-evalue-approximation to the mpiblast command line.
I tested it out over the weekend with a blastp between e. coli and yeast
AA sequences. In that dataset the e-values were correct within a factor
of 2, so it may be desirable to adjust the e-value cutoff slightly when
searching for very weak homology. For example, a hit given an e-value
of 8 by NCBI blastall may be given an approximate evalue of 11 by
mpiblast (using --fast-evalue-approximation), which would be above the
default e-value cutoff of 10 and thus discarded.
-Aaron
Stephen Ficklin wrote:
> Hi, I have a query file with 359,001 ESTs (218MB). I'm running a blastx using
> mpiBLAST against the Swiss-Prot Uniprot database containing 241,242 protein
> sequences (119MB) in size. The job on the master node has been doing all
> the work. The worker nodes just sit idle and after more than 12 hours I
> still have no results and the workers nodes are still doing nothing.
>
> Here's my command-line entry:
> /usr/local/mpich/bin/mpirun -np 12 -machinefile
> /home/userx/test/mpiblast/machines /usr/local/mpiblast/bin/mpiblast -p blastx
> -i /local/scratch/rosaceae2006_6_14.trim.lib -d uniprot_sprot.fasta -e 1e-5
> -F F -o /home/userx/test/mpiblast/results.out --debug=/test/mpiblast/debug.out
>
> I'm running this job on a 60 node cluster with each node having dual 64bit
> AMD Opteron 2.2Ghz processors and 2GB of RAM. The database files, mpiblast
> binaries and output files all reside on NFS mounted filesystems.
>
> Is mpiblast really just in the "preparation" phase before the workers get
> busy? Can anyone tell me if I am just being impatient by thinking there's
> something wrong? Will I get results if I just let it continue to run... or
> does something look amiss?
>
> Thanks,
> Stephen
>
>
> Below is the output from the debug logs and also from strace...
>
> >From process 0:
>
> [0] 0.125637 Locking fragment list
> [0] 0.125722 Locked fragment list
> [0] 0.14224 broadcasting file size of 218960601
> [0] 0.142269 file size broadcasted
> [0] 0.757526 broadcasting file
> [0] 83.6573 file broadcasted
> [0] 83.679 initializing ncbi ...blastall -p blastx -i
> /local/scratch/rosaceae2006_6_14.trim.lib -e 1e-5 -F F -o
> /home/userx/test/mpiblast/results.out -d
> /share/dblibs/mpiblast/uniprot_sprot.fasta
> [0] 83.6794
> (0) done initializing ncbi.
> [0] 83.7389 Init blast error code 0
>
>
> >From process 1:
> [1] 0.181678 Temp name base:
> /local/scratch/rosaceae2006_6_14.trim.libXXXXXX
> [1] 0.181869 Got temp name:
> /local/scratch/rosaceae2006_6_14.trim.libAIhXHa
> [1] 0.181895 waiting for file size broadcast
> [1] 0.181913 received file size broadcast of 218960601
> [1] 0.181945 opening receive file
> /local/scratch/rosaceae2006_6_14.trim.libAIhXHa
> [1] 0.181991 receiving file to
> /local/scratch/rosaceae2006_6_14.trim.libAIhXHa
> [1] 83.7265 received file broadcast
> [1] 254.948 Query file received as
> /local/scratch/rosaceae2006_6_14.trim.lib
>
>
> When the process first begins it appears to be reading in the query file.
> This takes approximately 1 1/2 hours. Here's a portion of the strace:
>
> read(4, "CCAACTGTAACTTAACCGGGAGAGGTCCCGCC"..., 4096) = 4096
> read(4, "ACCGGTGGAGTGAAGAAGCCCCACCGTTTCAG"..., 4096) = 4096
> read(4, "\nCATCCACGACTTTTGTTCCGACATGGCTCTC"..., 4096) = 4096
> mmap(NULL, 2461696, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) =
> 0x2aafb5e000
> munmap(0x2ab000e000, 2461696) = 0
> read(4, "GGATTAGATGGTAAGAATAACTGGAGAGTTGA"..., 4096) = 4096
> mmap(NULL, 2461696, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) =
> 0x2aafdb7000
> munmap(0x2ab0267000, 2461696) = 0
> read(4, "AATCCTGATGTGAACAAGAAGCTAAGTGCTGC"..., 4096) = 4096
> read(4, "TAGTGGGCTTGCCGCACTGCTCAAGGCGGCCC"..., 4096) = 4096
> brk(0x1e7f6000) = 0x1e7f6000
> brk(0x1e7f4000) = 0x1e7f4000
> read(4, "CCGTCTGGATCTCCCGCGAAGT\nGATAGTCGG"..., 4096) = 4096
> read(4, "TCCAATCTGTTCCAGCTTCCATAAGACCGTGG"..., 4096) = 4096
> read(4, "AAACTNCTGAGTGTCGACTCCCTTT\n>Malus"..., 4096) = 4096
> read(4, "GCCTTGACTACCTTG\nGCAACCCAAACCTTAT"..., 4096) = 4096
> read(4, "TCTTGAGAGCAGGAGCTGCCAAG\nGCCCTTGG"..., 4096) = 4096
> read(4, "TCTTCCCTGTTCCTCCATTTCCGAGCTCCAAA"..., 4096) = 4096
> read(4, "GACCAAAC\nTCGGCCGCCTCGTGAAGGAAGGC"..., 4096) = 4096
> mmap(NULL, 2461696, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) =
> 0x2ab0010000
> munmap(0x2aafb5e000, 2461696) = 0
> brk(0x1e815000) = 0x1e815000
> read(4, "C\nAGGCTCAGTCCGGAACCGGGAAAACAGCAA"..., 4096) = 4096
> read(4, "\nCGTAGTAGCATAACTACTACGAATTTC\n>Ma"..., 4096) = 4096
> read(4, "CCTGNGAAAGTCTTGCTGAACCAATACAG\nAC"..., 4096) = 4096
> read(4, "ACAAGAACTTG\nTGCCCAGGATGAGGTTTTAA"..., 4096) = 4096
> read(4, "AAAGAACCCTATTTAGGGAGTGCAATAGAGA\n"..., 4096) = 4096
> read(4, "GCGGCCCACCACGGCGTCGTCACAAGCGACTG"..., 4096) = 4096
> read(4, "ACCATGGGCAATGATTTGTGGTATGGACCGGA"..., 4096) = 4096
> read(4, "AAAGATGTCATTTTCATGATGATGATATTGCC"..., 4096) = 4096
> brk(0x1e836000) = 0x1e836000
> brk(0x1e835000) = 0x1e835000
> mmap(NULL, 2461696, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) =
> 0x2aafb5e000
> munmap(0x2ab0010000, 2461696) = 0
> read(4, "ATCTTGCCATATGATTATGAAAAAAATGAAGT"..., 4096) = 4096
> mmap(NULL, 2461696, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) =
> 0x2ab0010000
> munmap(0x2aafdb7000, 2461696) = 0
> read(4, "AAGATGTCGAGTGCCGCCGATCCCGAGCACAG"..., 4096) = 4096
> read(4, "GCTCGTGGACAGCAGGGTTCTTATCCTATCAA"..., 4096) = 4096
> read(4, "TAGGTGAGAATCCTTCTCTGGATTGGTCCAAC"..., 4096) = 4096
> read(4, "GAAAGTTTTAATATTTTGAATTTAAATTTG\nA"..., 4096) = 4096
> read(4, "TTCTCGGCACAATATCTTGCATGCGATAAATA"..., 4096) = 4096
> brk(0x1e856000) = 0x1e856000
> read(4, "TTGCCTCACCATGTGCACAAGCTGTGTCGCAT"..., 4096) = 4096
>
>
> Later, it appears that the program is doing something with the databases. It
> never seems to come out of this phase, just looping doing the same type thing
> over and over again:
>
> mmap(NULL, 266240, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) =
> 0x2ab9fc3000
> mmap(NULL, 266240, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) =
> 0x2aba004000
> stat("BLOSUM62", 0x7fbfffd0c0) = -1 ENOENT (No such file or
> directory)
> stat("/usr/local/blast/data/BLOSUM62", {st_mode=S_IFREG|0644, st_size=2061,
> ...}) = 0
> open("/usr/local/blast/data/BLOSUM62", O_RDONLY) = 6
> fstat(6, {st_mode=S_IFREG|0644, st_size=2061, ...}) = 0
> mmap(NULL, 32768, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) =
> 0x2aba045000
> read(6, "# Entries for the BLOSUM62 matri"..., 32768) = 2061
> read(6, "", 32768) = 0
> close(6) = 0
> munmap(0x2aba045000, 32768) = 0
> munmap(0x2aba004000, 266240) = 0
> mmap(NULL, 528384, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) =
> 0x2aba004000
> munmap(0x2ab9fc3000, 266240) = 0
> munmap(0x2aba004000, 528384) = 0
> munmap(0x2ab9e29000, 166504) = 0
> munmap(0x2ab9e52000, 166504) = 0
> munmap(0x2ab9e7b000, 166504) = 0
> munmap(0x2ab9ea4000, 166504) = 0
> munmap(0x2ab9ecd000, 166512) = 0
> munmap(0x2ab9ef6000, 166512) = 0
> munmap(0x2ab9f1f000, 166512) = 0
> munmap(0x2ab9f48000, 166512) = 0
> munmap(0x2ab9f71000, 166512) = 0
> munmap(0x2ab9f9a000, 166504) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.pal", {st_mode=S_IFREG|0644,
> st_size=604, ...}) = 0
> open("/share/dblibs/mpiblast/uniprot_sprot.fasta.pal", O_RDONLY) = 6
> open("/share/dblibs/mpiblast/uniprot_sprot.fasta.pal", O_RDONLY) = 7
> fstat(7, {st_mode=S_IFREG|0644, st_size=604, ...}) = 0
> mmap(NULL, 32768, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) =
> 0x2ab9e29000
> read(7, "#\n# Alias file created Wed Nov 2"..., 32768) = 604
> close(7) = 0
> munmap(0x2ab9e29000, 32768) = 0
> fstat(6, {st_mode=S_IFREG|0644, st_size=604, ...}) = 0
> mmap(NULL, 32768, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) =
> 0x2ab9e29000
> read(6, "#\n# Alias file created Wed Nov 2"..., 32768) = 604
> read(6, "", 32768) = 0
> close(6) = 0
> munmap(0x2ab9e29000, 32768) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.000.pal", 0x7fbffea020) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.000.pin",
> {st_mode=S_IFREG|0644, st_size=166504, ...}) = 0
> stat("/share/dblibs/mpiblast/comindex.mm", 0x7fbffef130) = -1 ENOENT (No such
> file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.000.pin",
> {st_mode=S_IFREG|0644, st_size=166504, ...}) = 0
> open("/share/dblibs/mpiblast/uniprot_sprot.fasta.000.pin", O_RDONLY) = 6
> mmap(NULL, 166504, PROT_READ, MAP_SHARED, 6, 0) = 0x2ab9e29000
> close(6) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.000.pnd",
> {st_mode=S_IFREG|0644, st_size=0, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.000.psd",
> {st_mode=S_IFREG|0644, st_size=768708, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.000.psi",
> {st_mode=S_IFREG|0644, st_size=17296, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.000.ppd", 0x7fbffef130) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.001.pal", 0x7fbffea020) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.001.pin",
> {st_mode=S_IFREG|0644, st_size=166504, ...}) = 0
> stat("/share/dblibs/mpiblast/comindex.mm", 0x7fbffef130) = -1 ENOENT (No such
> file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.001.pin",
> {st_mode=S_IFREG|0644, st_size=166504, ...}) = 0
> open("/share/dblibs/mpiblast/uniprot_sprot.fasta.001.pin", O_RDONLY) = 6
> mmap(NULL, 166504, PROT_READ, MAP_SHARED, 6, 0) = 0x2ab9e52000
> close(6) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.001.pnd",
> {st_mode=S_IFREG|0644, st_size=0, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.001.psd",
> {st_mode=S_IFREG|0644, st_size=768492, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.001.psi",
> {st_mode=S_IFREG|0644, st_size=17274, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.001.ppd", 0x7fbffef130) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.002.pal", 0x7fbffea020) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.002.pin",
> {st_mode=S_IFREG|0644, st_size=166504, ...}) = 0
> stat("/share/dblibs/mpiblast/comindex.mm", 0x7fbffef130) = -1 ENOENT (No such
> file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.002.pin",
> {st_mode=S_IFREG|0644, st_size=166504, ...}) = 0
> open("/share/dblibs/mpiblast/uniprot_sprot.fasta.002.pin", O_RDONLY) = 6
> mmap(NULL, 166504, PROT_READ, MAP_SHARED, 6, 0) = 0x2ab9e7b000
> close(6) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.002.pnd",
> {st_mode=S_IFREG|0644, st_size=0, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.002.psd",
> {st_mode=S_IFREG|0644, st_size=768856, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.002.psi",
> {st_mode=S_IFREG|0644, st_size=17246, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.002.ppd", 0x7fbffef130) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.003.pal", 0x7fbffea020) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.003.pin",
> {st_mode=S_IFREG|0644, st_size=166504, ...}) = 0
> stat("/share/dblibs/mpiblast/comindex.mm", 0x7fbffef130) = -1 ENOENT (No such
> file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.003.pin",
> {st_mode=S_IFREG|0644, st_size=166504, ...}) = 0
> open("/share/dblibs/mpiblast/uniprot_sprot.fasta.003.pin", O_RDONLY) = 6
> mmap(NULL, 166504, PROT_READ, MAP_SHARED, 6, 0) = 0x2ab9ea4000
> close(6) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.003.pnd",
> {st_mode=S_IFREG|0644, st_size=0, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.003.psd",
> {st_mode=S_IFREG|0644, st_size=768804, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.003.psi",
> {st_mode=S_IFREG|0644, st_size=17257, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.003.ppd", 0x7fbffef130) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.004.pal", 0x7fbffea020) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.004.pin",
> {st_mode=S_IFREG|0644, st_size=166512, ...}) = 0
> stat("/share/dblibs/mpiblast/comindex.mm", 0x7fbffef130) = -1 ENOENT (No such
> file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.004.pin",
> {st_mode=S_IFREG|0644, st_size=166512, ...}) = 0
> open("/share/dblibs/mpiblast/uniprot_sprot.fasta.004.pin", O_RDONLY) = 6
> mmap(NULL, 166512, PROT_READ, MAP_SHARED, 6, 0) = 0x2ab9ecd000
> close(6) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.004.pnd",
> {st_mode=S_IFREG|0644, st_size=0, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.004.psd",
> {st_mode=S_IFREG|0644, st_size=769222, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.004.psi",
> {st_mode=S_IFREG|0644, st_size=17320, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.004.ppd", 0x7fbffef130) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.005.pal", 0x7fbffea020) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.005.pin",
> {st_mode=S_IFREG|0644, st_size=166512, ...}) = 0
> stat("/share/dblibs/mpiblast/comindex.mm", 0x7fbffef130) = -1 ENOENT (No such
> file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.005.pin",
> {st_mode=S_IFREG|0644, st_size=166512, ...}) = 0
> open("/share/dblibs/mpiblast/uniprot_sprot.fasta.005.pin", O_RDONLY) = 6
> mmap(NULL, 166512, PROT_READ, MAP_SHARED, 6, 0) = 0x2ab9ef6000
> close(6) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.005.pnd",
> {st_mode=S_IFREG|0644, st_size=0, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.005.psd",
> {st_mode=S_IFREG|0644, st_size=768998, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.005.psi",
> {st_mode=S_IFREG|0644, st_size=17265, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.005.ppd", 0x7fbffef130) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.006.pal", 0x7fbffea020) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.006.pin",
> {st_mode=S_IFREG|0644, st_size=166512, ...}) = 0
> stat("/share/dblibs/mpiblast/comindex.mm", 0x7fbffef130) = -1 ENOENT (No such
> file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.006.pin",
> {st_mode=S_IFREG|0644, st_size=166512, ...}) = 0
> open("/share/dblibs/mpiblast/uniprot_sprot.fasta.006.pin", O_RDONLY) = 6
> mmap(NULL, 166512, PROT_READ, MAP_SHARED, 6, 0) = 0x2ab9f1f000
> close(6) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.006.pnd",
> {st_mode=S_IFREG|0644, st_size=0, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.006.psd",
> {st_mode=S_IFREG|0644, st_size=768576, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.006.psi",
> {st_mode=S_IFREG|0644, st_size=17254, ...}) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.006.ppd", 0x7fbffef130) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.007.pal", 0x7fbffea020) = -1
> ENOENT (No such file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.007.pin",
> {st_mode=S_IFREG|0644, st_size=166512, ...}) = 0
> stat("/share/dblibs/mpiblast/comindex.mm", 0x7fbffef130) = -1 ENOENT (No such
> file or directory)
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.007.pin",
> {st_mode=S_IFREG|0644, st_size=166512, ...}) = 0
> open("/share/dblibs/mpiblast/uniprot_sprot.fasta.007.pin", O_RDONLY) = 6
> mmap(NULL, 166512, PROT_READ, MAP_SHARED, 6, 0) = 0x2ab9f48000
> close(6) = 0
> stat("/share/dblibs/mpiblast/uniprot_sprot.fasta.007.pnd",
> t/uniprot_sprot.fasta.pal", O_RDONLY <unfinished ...>
>
>
>
> Here's the 'top' output while it's in this phase:
>
> top - 10:59:05 up 13 days, 17:19, 2 users, load average: 15.39, 14.99, 14.91
> Tasks: 106 total, 13 running, 93 sleeping, 0 stopped, 0 zombie
> Cpu(s): 90.5% us, 8.8% sy, 0.0% ni, 0.0% id, 0.0% wa, 0.2% hi, 0.5% si
> Mem: 2055592k total, 1841228k used, 214364k free, 36076k buffers
> Swap: 4104596k total, 51876k used, 4052720k free, 560236k cached
>
> PID USER PR NI VIRT RES SHR S %CPU %MEM TIME+ COMMAND
> 1364 userx 25 0 662m 657m 5408 R 96.9 32.8 288:42.29 mpiblast
> 1366 userx 25 0 52764 50m 9164 R 17.0 2.5 32:03.48 mpiblast
> 1368 userx 25 0 52764 50m 9140 R 17.0 2.5 42:13.77 mpiblast
> 1365 userx 25 0 52764 50m 9272 R 16.3 2.5 31:41.58 mpiblast
> 1374 userx 25 0 52764 50m 9124 R 16.3 2.5 36:11.10 mpiblast
> 1376 userx 25 0 52764 50m 9180 R 16.0 2.5 40:15.22 mpiblast
> 1371 userx 25 0 52764 50m 9088 R 15.6 2.5 48:58.12 mpiblast
> 1367 userx 25 0 52764 50m 9248 R 0.7 2.5 18:32.87 mpiblast
> 1369 userx 25 0 52764 50m 9120 R 0.7 2.5 13:34.60 mpiblast
> 1373 userx 25 0 52764 50m 9104 R 0.7 2.5 27:16.60 mpiblast
> 6724 userx 16 0 5284 928 692 R 0.7 0.0 0:00.16 top
> 1370 userx 25 0 52764 50m 8972 R 0.3 2.5 7:01.37 mpiblast
> 1335 userx 17 0 53804 868 864 S 0.0 0.0 0:00.00 sh
> 1336 userx 17 0 53940 916 912 S 0.0 0.0 0:00.01 mpirun
> 1375 userx 25 0 52764 50m 9156 R 0.0 2.5 6:18.04 mpiblast
> 6363 userx 16 0 35768 2784 2012 S 0.0 0.1 0:00.29 sshd
> 6364 userx 15 0 54824 1668 928 S 0.0 0.1 0:00.07 tcsh
>
>
>
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-------------------------------------------------------------------------
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opinions on IT & business topics through brief surveys - and earn cash
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