## ngmx

Main Table of Contents

VERSION 3.2.0
Sun 25 Jan 2004

### Description

ngmx is the Gromacs trajectory viewer. This program reads a trajectory file, a run input file and an index file and plots a 3D structure of your molecule on your standard X Window screen. No need for a high end graphics workstation, it even works on Monochrome screens.

The following features have been implemented: 3D view, rotation, translation and scaling of your molecule(s), labels on atoms, animation of trajectories, hardcopy in PostScript format, user defined atom-filters runs on MIT-X (real X), open windows and motif, user friendly menus, option to remove periodicity, option to show computational box.

Some of the more common X command line options can be used:
-bg, -fg change colors, -font fontname, changes the font.

### Files

option | filename | type | description
--- | --- | --- | ---
`-f` | `traj.xtc` | Input | Generic trajectory: xtc trr trj gro g96 pdb
`-s` | `topol.tpr` | Input | Generic run input: tpr tpb tpa xml
`-n` | `index.ndx` | Input, Opt. | Index file

### Other options

option | type | default | description
--- | --- | --- | ---
`-[no]h` | bool | `no` | Print help info and quit
`-nice` | int | `0` | Set the nicelevel
`-b` | time | `-1` | First frame (ps) to read from trajectory
`-e` | time | `-1` | Last frame (ps) to read from trajectory
`-dt` | time | `-1` | Only use frame when t MOD dt = first time (ps)

- Balls option does not work
- Some times dumps core without a good reason

http://www.gromacs.org
gromacs@gromacs.org