This is the command gmx-mk_angndx that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
gmx-mk_angndx - Generate index files for 'gmx angle'
SYNOPSIS
gmx mk_angndx [-s [<.tpr>]] [-n [<.ndx>]] [-type <enum>] [-[no]hyd]
[-hq <real>]
DESCRIPTION
gmx mk_angndx makes an index file for calculation of angle distributions etc. It uses a
run input file (.tpx) for the definitions of the angles, dihedrals etc.
OPTIONS
Options to specify input files:
-s [<.tpr>] (topol.tpr)
Portable xdr run input file
Options to specify output files:
-n [<.ndx>] (angle.ndx)
Index file
Other options:
-type <enum> (angle)
Type of angle: angle, dihedral, improper, ryckaert-bellemans
-[no]hyd (yes)
Include angles with atoms with mass < 1.5
-hq <real> (-1)
Ignore angles with atoms with mass < 1.5 and magnitude of their charge less than
this value
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