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GMX-VIEW

NAME
SYNOPSIS
DESCRIPTION
OPTIONS
KNOWN ISSUES
SEE ALSO
COPYRIGHT

NAME

gmx-view − View a trajectory on an X-Windows terminal

SYNOPSIS

gmx view [−f [<.xtc/.trr/...>]] [−s [<.tpr>]] [−n [<.ndx>]] [−b <time>]
[
−e <time>] [−dt <time>]

DESCRIPTION

gmx view 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.

OPTIONS

Options to specify input files:
−f [<.xtc/.trr/â¦>] (traj.xtc)

Trajectory: xtc trr cpt gro g96 pdb tng

−s [<.tpr>] (topol.tpr)

Portable xdr run input file

−n [<.ndx>] (index.ndx) (Optional)

Index file

Other options:
−b <time> (0)

Time of first frame to read from trajectory (default unit ps)

−e <time> (0)

Time of last frame to read from trajectory (default unit ps)

−dt <time> (0)

Only use frame when t MOD dt = first time (default unit ps)

KNOWN ISSUES

Balls option does not work

Some times dumps core without a good reason

SEE ALSO

gmx(1)

More information about GROMACS is available at <- http://www.gromacs.org/>.

COPYRIGHT

2019, GROMACS development team