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awk -v value="$value" 'NR==7{$0=$0" "value}1' input > /tmp/output
mv /tmp/output input

-v - define variable for awk
value=$value - value is a variable name which holds the value of $value. For...

#!/bin/bash
count_C=$(grep -c C mols)
count_H=$(grep -c H mols)
count_O=$(grep -c O mols)
value="${count_C} ${count_O} ${count_H}"
awk -v value="$value" 'NR==7{$0=$0" "value}1' input