[gmx-users] Removing water from a trajectory

[shayamra at post.tau.ac.il]

You should include
-n
at the end of you trjconv command-line. This tells trjconv to show  
options from index.ndx.

Regards,
-Shay

Quoting "Anirban Ghosh" <reach.anirban.ghosh at gmail.com>:

> Hi ALL,
>
> I have a system consisting of protein+lipid+ligand+water which has been
> simulated for 10 ns. Now I want to make a compressed trajectory from the
> original one by keeping only the protein and the ligand. I am trying to do
> so by using trjconv with an index file. But every time trjconv is showing
> the default options and I am not able to select the protein and the ligand
> simultaneously to generate the output. How can I do this? Any suggestion is
> welcome.
> Thanks a lot in advance.
>
>
> Regards,
>
> Anirban
>