Versions Compared

Old Version 3

changes.mady.by.user Marko Hrženjak

Saved on

compared with

New Version 4

changes.mady.by.user Marko Hrženjak

Saved on

Key

  • This line was added.
  • This line was removed.
  • Formatting was changed.

...

Code Block
languagebash
titleeasy-search
#!/bin/bash

#$ -N mmseq2-test
#$ -cwd
#$ -pe p28-mpifullmpi 2030 

module load bioinfo/MMseqs2/14-7e284


RUNNER="mpirun -np $NSLOTS" mmseqs easy-search examples/QUERY.fasta examples/DB.fasta alnRes.m8 --threads 1 tmp


Primjer 2.

Info
titleNapomena

U ovom primjeru se zauzima jedan cijeli čvor sa kombinacijom np x threads, umnožak dvaju vrijednosti mora biti jedank 28.


Code Block
languagebash
titleeasy-search2
#!/bin/bash

#$ -N mmseq2-test
#$ -cwd
#$ -pe p28-mpisingle 28 

module load bioinfo/MMseqs2/14-7e284


RUNNER="mpirun -np 7" mmseqs easy-search examples/QUERY.fasta examples/DB.fasta alnRes.m8 --threads 4 tmp
Apllikacija koristi mpirun, stoga je potrebno paziti na broj traženih jezgri. Vodi se kao np x threads.

Instalacija
  • Korišten je prevodioc gcc/9
  • Za mpi je korišten mpi/openmpi41-intel-x86_64
...