On 10/02/2012 05:16 PM, Justin Lemkul wrote:
On 10/2/12 11:13 AM, Albert wrote:
hello guys:
I am using g_helixorient to analyze the helix property in my
system and it
generate three theta[1,2,3].xvg file. I am wondering what's that? I
didn't find
any comments in the help file.
Have you read the last paragraph of g_helixorient -h?
-Justin
of course, here it is. I don't find anything related to my questions.
Option Filename Type Description
------------------------------------------------------------
-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, Opt. Index file
-oaxis helixaxis.dat Output Generic data file
-ocenter center.dat Output Generic data file
-orise rise.xvg Output xvgr/xmgr file
-oradius radius.xvg Output xvgr/xmgr file
-otwist twist.xvg Output xvgr/xmgr file
-obending bending.xvg Output xvgr/xmgr file
-otilt tilt.xvg Output xvgr/xmgr file
-orot rotation.xvg Output xvgr/xmgr file
Option Type Value Description
------------------------------------------------------
-[no]h bool yes Print help info and quit
-[no]version bool no Print version info and quit
-nice int 19 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)
-xvg enum xmgrace xvg plot formatting: xmgrace, xmgr or none
-[no]sidechain bool no Calculate sidechain directions relative to helix
axis too.
-[no]incremental bool no Calculate incremental rather than total
rotation/tilt.
--
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