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Eyyyy, perfect! Thanks!

It certainly looks like it should work to me, but this creates an empty file and still prints the results to the screen instead..?

---------- Post updated at 02:02 PM ---------- Previous update...

Ah ha, this runs and reports the results as desired -- however, I would like it in a dat file rather than just printed to the screen, if possible. The only way I've done an awk to a file before is
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C shell (on Red Hat Enterprise Linux Workstation release 6.5 (Santiago), if that matters in any way)

Unfortunately I get the error "while: Expression Syntax." when I try to run that...?

So I have several files (35000, to be exact) in the format rmsd_protein_*.dat each with 2 columns and 35000 rows.

I would like to count how many values in the second column are less than 3 for...