Using awk within a for loop


 
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# 1  
Old 08-21-2016
Using awk within a for loop

Hello, I currently have managed to get an awk function working inside a for loop that allows me to combine two files based on their headings but what I have not been able to do is print the output to files with variable names.

Code:
awk '
        NR==FNR {a[i++]=$0; next} 
        /^>/ {$0 = $0" "a[j++];}
        {print }
        ' "${file%%.txt*}" PRD.good."${sample##*/}"_relabeled

What I would like to do print the output to a new file with the same string as BITS_PRD.good."${sample##*/}"_relabeled but is this possible to do with awk and print or would it be possible with print? Let me know if I can be more clear about anything! Thank you Smilie
# 2  
Old 08-21-2016
Quote:
Originally Posted by Allie_gastrator
Hello, I currently have managed to get an awk function working inside a for loop that allows me to combine two files based on their headings but what I have not been able to do is print the output to files with variable names.
Code:
awk '
        NR==FNR {a[i++]=$0; next} 
        /^>/ {$0 = $0" "a[j++];}
        {print }
        ' "${file%%.txt*}" PRD.good."${sample##*/}"_relabeled

What I would like to do print the output to a new file with the same string as BITS_PRD.good."${sample##*/}"_relabeled but is this possible to do with awk and print or would it be possible with print? Let me know if I can be more clear about anything! Thank you Smilie
Hello Allie_gastrator,

AFAIU your requirement is to take above awk's output into a file, you could do so with a simple re-direction, try as follows and let me know how it goes then(Not tested though).
Code:
awk '
        NR==FNR {a[i++]=$0; next} 
        /^>/ {$0 = $0" "a[j++];}
        {print }
        ' "${file%%.txt*}" PRD.good."${sample##*/}"_relabeled > BITS_PRD.good."${sample##*/}"_relabeled

If you have some other requirement(which is nt matching this) then please mention details more clearly with expected output too.

Thanks,
R. Singh
This User Gave Thanks to RavinderSingh13 For This Post:
# 3  
Old 08-21-2016
I tried something similar earlier, I'm not sure why it wasn't working then but this worked too easily!! LOL thannk you!
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