Submitting awk script into cluster short.q


 
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# 1  
Submitting awk script into cluster short.q

Hello,

I want to submit my awk script into cluster queue as my job takes about forty minutes to finish so I can not run it on the main node.
My awk script is like the following and I have three files. so, I write :

qsub -q short.q Myscript.awk file1 file2 file3

It submits the work into cluster but it gives an error after some seconds.
Code:
BEGIN{
OFS=ORS=""
}
{
..........
  nsnp++
  if((2*nind+4) != NF){........}
  for(i=1;i<=nind;i++){
   if(ID_num[i] in POP){
      pos_deb=2*(i-1)+5
     {...........}
      }
 }
 if(nsnp%1000==0){print nsnp"\n"}
}
}

Thank you very much for yout help

Last edited by Neo; 11-06-2012 at 01:05 PM..
# 2  
What errors you are getting.?

and

why ORS=""..?

Code:
OFS=ORS=""

 

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