[gmx-users] trjconv for cutting the trajectory in small subtrajectories

Mahboobeh Eslami mahboobeh.eslami at yahoo.com
Sat Apr 25 15:07:19 CEST 2015

hi dear mingYes. Sorry, I've used the following command:
trjconv -f md.xtc -s md.tpr -n index.ndx -b 10000 -e 17000 
but I do not get the desired result.best

     On Saturday, April 25, 2015 5:09 PM, Ming Tang <m21.tang at qut.edu.au> wrote:

 #yiv1199526006 -- .yiv1199526006EmailQuote {margin-left:1pt;padding-left:4pt;border-left:#800000 2px solid;}#yiv1199526006 Hi,-e is end frame, -b is the start one.

Sent from my Huawei Mobile

Mahboobeh Eslami <mahboobeh.eslami at yahoo.com> wrote:

hi GMx user I simulated protein-ligand comolex with gromacs. total simulation time is 20ns. when I use trjconv for cutting the  trajectory  in  small   subtrajectories from 10000ps to 17000ps by following command:
trjconv -f md.xtc -s md.tpr -n index.ndx -e 10000 -b 17000  
I see following text in terminal window;
Reading frame       0 time 10000.000   
Precision of md-nopbc.xtc is 0.001 (nm)
Using output precision of 0.001 (nm)
 ->  frame   3500 time 17000.000        ->  frame   3000 time 16000.000
I think the generated trajectory is incomplete because saved frame is incomplete. please guide me.
Many thanks tobest
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