Re: [AMBER] gnu plot of cpptraj Secstruct

From: Jason Swails <>
Date: Fri, 11 Dec 2015 08:43:30 -0500

On Fri, Dec 11, 2015 at 7:22 AM, George Tzotzos <> wrote:

> Thank you very much for the help.
> The Amber list seems to have stripped my attachment. I include it in this
> email too.
> Secstruct produces a gnuplot script a sample of which is at the end of
> this message. The script is then run by cpptraj on the fly.
> I guess the problem(???) is with set ytics(“ASP:1 1.000,”THR:2”, etc).
> Do I have to run gnuplot outside cpptraj by removing the ytics manually
> and also changing the set yrange to [1:125] (125 is the last residue).

​Unless you want to change the cpptraj source code to print the gnuplot
script you want, yes. But this should not be a problem. cpptraj creates
the gnuplot script for you, so all you have to do is modify that, then run:

gnuplot <script>


Jason M. Swails
Rutgers University
Postdoctoral Researcher
AMBER mailing list
Received on Fri Dec 11 2015 - 06:00:06 PST
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