How do I write multiple text files from embedded for loop in bash?

Question

I have this bash loop below which uses perl script. It is expected to output something for every $i in every $f which I want to save as separate text file. The code I have below does the job, but instead of saving for individual $i, it saves for $f and puts the output of 18 to 24 in one file. May be I have to reposition the write command in this loop or is there a better way to do this?

for f in *.fastq; do 
echo "Processing: " $f
for i in $(seq 18 24); do
echo "Doing: " $i
perl /home/owner/perl/count.pl $f $i
done > >(tee /media/owner/${f}_${i}.txt) 2>&1
done

Loop redirections apply to the entire loop, not each iteration. — that other guy
– that other guy, Commented Jul 28, 2018 at 0:05
Use the redirection on the perl command instead. Or create a { group; } and redirect that — that other guy
– that other guy, Commented Jul 28, 2018 at 0:07

that other guy · Accepted Answer · 2018-07-28 02:10:21Z

1

Redirections on loops are per loop, not per iterations.

You can instead use a { command group; } around the commands you want and redirect that:

for f in *.fastq;
do 
  echo "Processing: " $f
  for i in $(seq 18 24);
  do
    {
      echo "Doing: " $i
      perl /home/owner/perl/count.pl $f $i
    } > >(tee /media/owner/${f}_${i}.txt) 2>&1
  done
done

edited Jul 28, 2018 at 2:10

answered Jul 28, 2018 at 0:14

that other guy

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