Specifying a non-sequential array for the SGE task ID

Question

I would like to submit a job array with a list of non-sequential numbers for the SGE_TASK_ID and I also get an error that says, "The initial portion of the string 'file.sh' doesn't contain decimal numbers". Any suggestions?

I have a file containing the values that I would like to use as the SGE_TASK_IDs. I will call this file "tasknumbers" (exactly how it appears in the file).

3 
5 
10 
25 
50 
100 

I have a shell script to retrieve the values to input as the SGE_TASK_IDs

#!/bin/sh
#taskid.sh
taskid=~/folder/tasknumbers
id=$(awk "NR==SGE_TASK_ID" $taskid)

I have an additional file where the SGE_TASK_ID will be used as an input parameter that I will call file.sh (This is a wrapper that takes the task ID and inputs the value in a test).

In the terminal I typed (which returns an error):

qsub -cwd -N output -t $id ./file.sh -pe

The error:

qsub: Numerical value invalid!
The initial portion of string "./file.sh" contains no decimal number

Answer 1

Maybe something like this will work:

tasknumbers file:

1
3 
5 
10 
25 
50 
100 

Use for loop to submit one job per task id:

for id in `cat tasknumbers`
do
    qsub -cwd -N output -t $id ./file.sh -pe
done