NAME

       g_densorder - calculate surface fluctuations

       VERSION 4.6.5

SYNOPSIS

       g_densorder  -s  topol.tpr  -f  traj.xtc  -n  index.ndx -o Density4D.dat -or hello.out -og
       interface.xpm -Spect intfspect.out -[no]h -[no]version -nice int -b time -e time -dt  time
       -[no]w  -[no]1d  -bw real -bwn real -order int -axis string -method enum -d1 real -d2 real
       -tblock int -nlevel int

DESCRIPTION

       A small program to reduce a two-phase density distribution along an axis, computed over  a
       MD  trajectory  to  2D  surfaces fluctuating in time, by a fit to a functional profile for
       interfacial densities A time-averaged spatial representation  of  the  interfaces  can  be
       output with the option -tavg

FILES

       -s topol.tpr Input
        Run input file: tpr tpb tpa

       -f traj.xtc Input
        Trajectory: xtc trr trj gro g96 pdb cpt

       -n index.ndx Input
        Index file

       -o Density4D.dat Output, Opt.
        Generic data file

       -or hello.out Output, Opt., Mult.
        Generic output file

       -og interface.xpm Output, Opt., Mult.
        X PixMap compatible matrix file

       -Spect intfspect.out Output, Opt., Mult.
        Generic output file

OTHER OPTIONS

       -[no]hno
        Print help info and quit

       -[no]versionno
        Print version info and quit

       -nice int 0
        Set the nicelevel

       -b time 0
        First frame (ps) to read from trajectory

       -e time 0
        Last frame (ps) to read from trajectory

       -dt time 0
        Only use frame when t MOD dt = first time (ps)

       -[no]wno
        View output  .xvg,  .xpm,  .eps and  .pdb files

       -[no]1dno
        Pseudo-1d interface geometry

       -bw real 0.2
        Binwidth of density distribution tangential to interface

       -bwn real 0.05
        Binwidth of density distribution normal to interface

       -order int 0
        Order of Gaussian filter, order 0 equates to NO filtering

       -axis string Z
        Axis Direction - X, Y or Z

       -method enum bisect
        Interface location method:  bisect or  functional

       -d1 real 0
        Bulk density phase 1 (at small z)

       -d2 real 1000
        Bulk density phase 2 (at large z)

       -tblock int 100
        Number of frames in one time-block average

       -nlevel int 100
        Number of Height levels in 2D - XPixMaps

SEE ALSO

       gromacs(7)

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

                                          Mon 2 Dec 2013                           g_densorder(1)