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I want to wrap the gawk solution into a script like: #!/bin/bash echo read -p "Please enter your file name: " infile echo read -p "Please enter the column number with the mutations: " column echo read -p "Please enter a file name for the results: " outfile gawk -F '\t' -v OFS='\t' 'match($column, /[[:digit:]]+/, m) {$(++NF) = m[0]} 1' $infile > $outfile How do I pass a user defined variable like "$column" to gawk for the column to match?

minnimalist
– minnimalist

2016-02-16 05:14:16 +00:00
Commented Feb 16, 2016 at 5:14
Like this : gawk - F '\t' -v OFS='\t' -v col="$column" 'match($col, ... - - you should add some verification the column variable is a number since awk handles non-number looking strings like the number zero so you could be matching against $0

glenn jackman
– glenn jackman

2016-02-16 11:34:18 +00:00
Commented Feb 16, 2016 at 11:34

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