Hello,
I have a list of jobs with arbitrary inputs which I would like to
submit. I wanted to try and get around the sequential argument
requirement by reading the input arguments from a text file using:
$infile=$(awk "NR==$SGE_TASK_ID" /myPath/fileList.txt)
However, when I try echo "$infile" it is blank. I realized that I
needed to escape the variables in my script, and this is causing me
problems. I can get the correct output from awk using:
awk "NR==\$SGE_TASK_ID" /myPath/fileList.txt
And I can correctly assign $infile if I hard code the line number like:
infile=$(awk "NR==1" /myPath/fileList.txt)
So I think I have boiled down the problem to getting the command
substitution to handle the escape, since just adding the escape to the
first version does not work. I also attempted to use awk's variable
passing:
infile=$(awk -v "line=/$SGE_TASK_ID" 'NR == line' /myPath/fileList.txt)
But this produced the same blank output to echo \$infile (I needed to
escape this variable too). I would appreciate any advice on how to
get the escaped variables to be handled properly or on why my
variables need to be escaped. Examples that I've seen from other
users on my compute cluster use escaped variables, but I've noticed
that many other examples on line do not. I'd like to understand why I
need to use them and if there's any way around it.
Thanks,
Sara
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