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qsub

SGE qsub define variable using bach?

I am trying to automatically set up several variables for SGE system but get no luck.

#!/bin/bash

myname="test"
totaltask=10

#$ -N $myname
#$ -cwd
#$ -t 1-$totaltask

apparently $myname will not be recognized. any solution?

thanks a lot

Solution

  • Consider making a wrapper function

    qsub_file.sh

    #!/bin/bash
#$ -V
#$ -cwd

    wrapper_script.sh

    #!/bin/bash
myname="test"
totaltask=10
qsub qsub_script.sh -N ${myname} -t 1-${totaltask}