From 0c449c2531363503bf6dc2b860fb066deff58709 Mon Sep 17 00:00:00 2001
From: sjplimp <sjplimp@f3b2605a-c512-4ea7-a41b-209d697bcdaa>
Date: Fri, 5 Oct 2007 15:39:59 +0000
Subject: [PATCH] git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@960
 f3b2605a-c512-4ea7-a41b-209d697bcdaa

---
 doc/fix.html | 108 +++++++++++++++++++++++++--------------------------
 doc/fix.txt  | 108 +++++++++++++++++++++++++--------------------------
 2 files changed, 108 insertions(+), 108 deletions(-)

diff --git a/doc/fix.html b/doc/fix.html
index 7af7753e3c..c6d1437fa2 100644
--- a/doc/fix.html
+++ b/doc/fix.html
@@ -73,60 +73,60 @@ for individual fixes for info on which ones can be restarted.
 </P>
 <P>Here is an alphabetic list of fix styles available in LAMMPS:
 </P>
-<UL><LI><A HREF = "fix_addforce.html">fix addforce</A> - add a force to each atom
-<LI><A HREF = "fix_aveforce.html">fix aveforce</A> - add an averaged force to each atom
-<LI><A HREF = "fix_ave_atom.html">fix ave/atom</A> - compute per-atom time-averaged quantities
-<LI><A HREF = "fix_ave_spatial.html">fix ave/spatial</A> - output per-atom quantities by layer
-<LI><A HREF = "fix_ave_time.html">fix ave/time</A> - output time-averaged compute quantities
-<LI><A HREF = "fix_com.html">fix com</A> - compute a center-of-mass
-<LI><A HREF = "fix_deform.html">fix deform</A> - change the simulation box size/shape
-<LI><A HREF = "fix_deposit.html">fix deposit</A> - add new atoms above a surface
-<LI><A HREF = "fix_drag.html">fix drag</A> - drag atoms towards a defined coordinate
-<LI><A HREF = "fix_efield.html">fix efield</A> - impose electric field on system
-<LI><A HREF = "fix_enforce2d.html">fix enforce2d</A> - zero out z-dimension velocity and force
-<LI><A HREF = "fix_freeze.html">fix freeze</A> - freeze atoms in a granular simulation
-<LI><A HREF = "fix_gran_diag.html">fix gran/diag</A> - compute granular diagnostics
-<LI><A HREF = "fix_gravity.html">fix gravity</A> - add gravity to atoms in a granular simulation
-<LI><A HREF = "fix_gyration.html">fix gyration</A> - compute radius of gyration
-<LI><A HREF = "fix_gyration.html">fix heat</A> - add/subtract momentum-conserving heat
-<LI><A HREF = "fix_indent.html">fix indent</A> - impose force due to an indenter
-<LI><A HREF = "fix_langevin.html">fix langevin</A> - Langevin temperature control
-<LI><A HREF = "fix_lineforce.html">fix lineforce</A> - constrain atoms to move in a line
-<LI><A HREF = "fix_msd.html">fix msd</A> - compute mean-squared displacement      (i.e. diffusion coefficient)
-<LI><A HREF = "fix_momentum.html">fix momentum</A> - zero the linear and/or angular momentum   of a group of atoms
-<LI><A HREF = "fix_nph.html">fix nph</A> - constant NPH time integration via Nose/Hoover
-<LI><A HREF = "fix_npt.html">fix npt</A> - constant NPT time integration via Nose/Hoover
-<LI><A HREF = "fix_npt_asphere.html">fix npt/asphere</A> - NPT for aspherical particles
-<LI><A HREF = "fix_nve.html">fix nve</A> - constant NVE time integration
-<LI><A HREF = "fix_nve_asphere.html">fix nve/asphere</A> - NVT for aspherical particles
-<LI><A HREF = "fix_nve_dipole.html">fix nve/dipole</A> - NVE for point dipolar particles
-<LI><A HREF = "fix_nve_gran.html">fix nve/gran</A> - NVE for granular particles
-<LI><A HREF = "fix_nve_limit.html">fix nve/limit</A> - NVE with limited step length
-<LI><A HREF = "fix_nve_noforce.html">fix nve/noforce</A> - NVE without forces (v only)
-<LI><A HREF = "fix_nvt.html">fix nvt</A> - constant NVT time integration via Nose/Hoover
-<LI><A HREF = "fix_nvt_asphere.html">fix nvt/asphere</A> - NVT for aspherical particles
-<LI><A HREF = "fix_nvt_sllod.html">fix nvt/sllod</A> - NVT for NEMD with SLLOD equations
-<LI><A HREF = "fix_orient_fcc.html">fix orient/fcc</A> - add grain boundary migration force
-<LI><A HREF = "fix_planeforce.html">fix planeforce</A> - constrain atoms to move in a plane
-<LI><A HREF = "fix_poems.html">fix poems</A> - constrain clusters of atoms to move   as coupled rigid bodies
-<LI><A HREF = "fix_pour.html">fix pour</A> - pour new atoms into a granular simulation domain
-<LI><A HREF = "fix_print.html">fix print</A> - print text and variables during a simulation
-<LI><A HREF = "fix_rdf.html">fix rdf</A> - compute radial distribution functions
-<LI><A HREF = "fix_recenter.html">fix recenter</A> - constrain the center-of-mass position   of a group of atoms
-<LI><A HREF = "fix_rigid.html">fix rigid</A> - constrain one or more clusters of atoms to      move as a rigid body
-<LI><A HREF = "fix_setforce.html">fix setforce</A> - set the force on each atom
-<LI><A HREF = "fix_shake.html">fix shake</A> - SHAKE constraints on bonds and/or angles
-<LI><A HREF = "fix_spring.html">fix spring</A> - apply harmonic spring force to group of atoms
-<LI><A HREF = "fix_spring_rg.html">fix spring/rg</A> - spring on radius of gyration of      group of atoms
-<LI><A HREF = "fix_spring_self.html">fix spring/self</A> - spring from each atom to its origin
-<LI><A HREF = "fix_temp_rescale.html">fix temp/rescale</A> - temperature control by      velocity rescaling
-<LI><A HREF = "fix_tmd.html">fix tmd</A> - guide a group of atoms to a new configuration
-<LI><A HREF = "fix_viscous.html">fix viscous</A> - viscous damping for granular simulations
-<LI><A HREF = "fix_wall_gran.html">fix wall/gran</A> - frictional wall(s) for      granular simulations
-<LI><A HREF = "fix_wall_lj126.html">fix wall/lj126</A> - Lennard-Jones 12-6 wall
-<LI><A HREF = "fix_wall_lj93.html">fix wall/lj93</A> - Lennard-Jones 9-3 wall
-<LI><A HREF = "fix_wall_reflect.html">fix wall/reflect</A> - reflecting wall(s)
-<LI><A HREF = "fix_wiggle.html">fix wiggle</A> - oscillate walls and frozen atoms 
+<UL><LI><A HREF = "fix_addforce.html">addforce</A> - add a force to each atom
+<LI><A HREF = "fix_aveforce.html">aveforce</A> - add an averaged force to each atom
+<LI><A HREF = "fix_ave_atom.html">ave/atom</A> - compute per-atom time-averaged quantities
+<LI><A HREF = "fix_ave_spatial.html">ave/spatial</A> - output per-atom quantities by layer
+<LI><A HREF = "fix_ave_time.html">ave/time</A> - output time-averaged compute quantities
+<LI><A HREF = "fix_com.html">com</A> - compute a center-of-mass
+<LI><A HREF = "fix_deform.html">deform</A> - change the simulation box size/shape
+<LI><A HREF = "fix_deposit.html">deposit</A> - add new atoms above a surface
+<LI><A HREF = "fix_drag.html">drag</A> - drag atoms towards a defined coordinate
+<LI><A HREF = "fix_efield.html">efield</A> - impose electric field on system
+<LI><A HREF = "fix_enforce2d.html">enforce2d</A> - zero out z-dimension velocity and force
+<LI><A HREF = "fix_freeze.html">freeze</A> - freeze atoms in a granular simulation
+<LI><A HREF = "fix_gran_diag.html">gran/diag</A> - compute granular diagnostics
+<LI><A HREF = "fix_gravity.html">gravity</A> - add gravity to atoms in a granular simulation
+<LI><A HREF = "fix_gyration.html">gyration</A> - compute radius of gyration
+<LI><A HREF = "fix_gyration.html">heat</A> - add/subtract momentum-conserving heat
+<LI><A HREF = "fix_indent.html">indent</A> - impose force due to an indenter
+<LI><A HREF = "fix_langevin.html">langevin</A> - Langevin temperature control
+<LI><A HREF = "fix_lineforce.html">lineforce</A> - constrain atoms to move in a line
+<LI><A HREF = "fix_msd.html">msd</A> - compute mean-squared displacement      (i.e. diffusion coefficient)
+<LI><A HREF = "fix_momentum.html">momentum</A> - zero the linear and/or angular momentum   of a group of atoms
+<LI><A HREF = "fix_nph.html">nph</A> - constant NPH time integration via Nose/Hoover
+<LI><A HREF = "fix_npt.html">npt</A> - constant NPT time integration via Nose/Hoover
+<LI><A HREF = "fix_npt_asphere.html">npt/asphere</A> - NPT for aspherical particles
+<LI><A HREF = "fix_nve.html">nve</A> - constant NVE time integration
+<LI><A HREF = "fix_nve_asphere.html">nve/asphere</A> - NVT for aspherical particles
+<LI><A HREF = "fix_nve_dipole.html">nve/dipole</A> - NVE for point dipolar particles
+<LI><A HREF = "fix_nve_gran.html">nve/gran</A> - NVE for granular particles
+<LI><A HREF = "fix_nve_limit.html">nve/limit</A> - NVE with limited step length
+<LI><A HREF = "fix_nve_noforce.html">nve/noforce</A> - NVE without forces (v only)
+<LI><A HREF = "fix_nvt.html">nvt</A> - constant NVT time integration via Nose/Hoover
+<LI><A HREF = "fix_nvt_asphere.html">nvt/asphere</A> - NVT for aspherical particles
+<LI><A HREF = "fix_nvt_sllod.html">nvt/sllod</A> - NVT for NEMD with SLLOD equations
+<LI><A HREF = "fix_orient_fcc.html">orient/fcc</A> - add grain boundary migration force
+<LI><A HREF = "fix_planeforce.html">planeforce</A> - constrain atoms to move in a plane
+<LI><A HREF = "fix_poems.html">poems</A> - constrain clusters of atoms to move   as coupled rigid bodies
+<LI><A HREF = "fix_pour.html">pour</A> - pour new atoms into a granular simulation domain
+<LI><A HREF = "fix_print.html">print</A> - print text and variables during a simulation
+<LI><A HREF = "fix_rdf.html">rdf</A> - compute radial distribution functions
+<LI><A HREF = "fix_recenter.html">recenter</A> - constrain the center-of-mass position   of a group of atoms
+<LI><A HREF = "fix_rigid.html">rigid</A> - constrain one or more clusters of atoms to      move as a rigid body
+<LI><A HREF = "fix_setforce.html">setforce</A> - set the force on each atom
+<LI><A HREF = "fix_shake.html">shake</A> - SHAKE constraints on bonds and/or angles
+<LI><A HREF = "fix_spring.html">spring</A> - apply harmonic spring force to group of atoms
+<LI><A HREF = "fix_spring_rg.html">spring/rg</A> - spring on radius of gyration of      group of atoms
+<LI><A HREF = "fix_spring_self.html">spring/self</A> - spring from each atom to its origin
+<LI><A HREF = "fix_temp_rescale.html">temp/rescale</A> - temperature control by      velocity rescaling
+<LI><A HREF = "fix_tmd.html">tmd</A> - guide a group of atoms to a new configuration
+<LI><A HREF = "fix_viscous.html">viscous</A> - viscous damping for granular simulations
+<LI><A HREF = "fix_wall_gran.html">wall/gran</A> - frictional wall(s) for      granular simulations
+<LI><A HREF = "fix_wall_lj126.html">wall/lj126</A> - Lennard-Jones 12-6 wall
+<LI><A HREF = "fix_wall_lj93.html">wall/lj93</A> - Lennard-Jones 9-3 wall
+<LI><A HREF = "fix_wall_reflect.html">wall/reflect</A> - reflecting wall(s)
+<LI><A HREF = "fix_wiggle.html">wiggle</A> - oscillate walls and frozen atoms 
 </UL>
 <P>There are also additional fix styles submitted by users which are
 included in the LAMMPS distribution.  The list of these with links to
diff --git a/doc/fix.txt b/doc/fix.txt
index 70347560fd..dff6e087e9 100644
--- a/doc/fix.txt
+++ b/doc/fix.txt
@@ -70,68 +70,68 @@ for individual fixes for info on which ones can be restarted.
 
 Here is an alphabetic list of fix styles available in LAMMPS:
 
-"fix addforce"_fix_addforce.html - add a force to each atom
-"fix aveforce"_fix_aveforce.html - add an averaged force to each atom
-"fix ave/atom"_fix_ave_atom.html - compute per-atom time-averaged quantities
-"fix ave/spatial"_fix_ave_spatial.html - output per-atom quantities by layer
-"fix ave/time"_fix_ave_time.html - output time-averaged compute quantities
-"fix com"_fix_com.html - compute a center-of-mass
-"fix deform"_fix_deform.html - change the simulation box size/shape
-"fix deposit"_fix_deposit.html - add new atoms above a surface
-"fix drag"_fix_drag.html - drag atoms towards a defined coordinate
-"fix efield"_fix_efield.html - impose electric field on system
-"fix enforce2d"_fix_enforce2d.html - zero out z-dimension velocity and force
-"fix freeze"_fix_freeze.html - freeze atoms in a granular simulation
-"fix gran/diag"_fix_gran_diag.html - compute granular diagnostics
-"fix gravity"_fix_gravity.html - add gravity to atoms in a granular simulation
-"fix gyration"_fix_gyration.html - compute radius of gyration
-"fix heat"_fix_gyration.html - add/subtract momentum-conserving heat
-"fix indent"_fix_indent.html - impose force due to an indenter
-"fix langevin"_fix_langevin.html - Langevin temperature control
-"fix lineforce"_fix_lineforce.html - constrain atoms to move in a line
-"fix msd"_fix_msd.html - compute mean-squared displacement \
+"addforce"_fix_addforce.html - add a force to each atom
+"aveforce"_fix_aveforce.html - add an averaged force to each atom
+"ave/atom"_fix_ave_atom.html - compute per-atom time-averaged quantities
+"ave/spatial"_fix_ave_spatial.html - output per-atom quantities by layer
+"ave/time"_fix_ave_time.html - output time-averaged compute quantities
+"com"_fix_com.html - compute a center-of-mass
+"deform"_fix_deform.html - change the simulation box size/shape
+"deposit"_fix_deposit.html - add new atoms above a surface
+"drag"_fix_drag.html - drag atoms towards a defined coordinate
+"efield"_fix_efield.html - impose electric field on system
+"enforce2d"_fix_enforce2d.html - zero out z-dimension velocity and force
+"freeze"_fix_freeze.html - freeze atoms in a granular simulation
+"gran/diag"_fix_gran_diag.html - compute granular diagnostics
+"gravity"_fix_gravity.html - add gravity to atoms in a granular simulation
+"gyration"_fix_gyration.html - compute radius of gyration
+"heat"_fix_gyration.html - add/subtract momentum-conserving heat
+"indent"_fix_indent.html - impose force due to an indenter
+"langevin"_fix_langevin.html - Langevin temperature control
+"lineforce"_fix_lineforce.html - constrain atoms to move in a line
+"msd"_fix_msd.html - compute mean-squared displacement \
      (i.e. diffusion coefficient)
-"fix momentum"_fix_momentum.html - zero the linear and/or angular momentum \
+"momentum"_fix_momentum.html - zero the linear and/or angular momentum \
   of a group of atoms
-"fix nph"_fix_nph.html - constant NPH time integration via Nose/Hoover
-"fix npt"_fix_npt.html - constant NPT time integration via Nose/Hoover
-"fix npt/asphere"_fix_npt_asphere.html - NPT for aspherical particles
-"fix nve"_fix_nve.html - constant NVE time integration
-"fix nve/asphere"_fix_nve_asphere.html - NVT for aspherical particles
-"fix nve/dipole"_fix_nve_dipole.html - NVE for point dipolar particles
-"fix nve/gran"_fix_nve_gran.html - NVE for granular particles
-"fix nve/limit"_fix_nve_limit.html - NVE with limited step length
-"fix nve/noforce"_fix_nve_noforce.html - NVE without forces (v only)
-"fix nvt"_fix_nvt.html - constant NVT time integration via Nose/Hoover
-"fix nvt/asphere"_fix_nvt_asphere.html - NVT for aspherical particles
-"fix nvt/sllod"_fix_nvt_sllod.html - NVT for NEMD with SLLOD equations
-"fix orient/fcc"_fix_orient_fcc.html - add grain boundary migration force
-"fix planeforce"_fix_planeforce.html - constrain atoms to move in a plane
-"fix poems"_fix_poems.html - constrain clusters of atoms to move \
+"nph"_fix_nph.html - constant NPH time integration via Nose/Hoover
+"npt"_fix_npt.html - constant NPT time integration via Nose/Hoover
+"npt/asphere"_fix_npt_asphere.html - NPT for aspherical particles
+"nve"_fix_nve.html - constant NVE time integration
+"nve/asphere"_fix_nve_asphere.html - NVT for aspherical particles
+"nve/dipole"_fix_nve_dipole.html - NVE for point dipolar particles
+"nve/gran"_fix_nve_gran.html - NVE for granular particles
+"nve/limit"_fix_nve_limit.html - NVE with limited step length
+"nve/noforce"_fix_nve_noforce.html - NVE without forces (v only)
+"nvt"_fix_nvt.html - constant NVT time integration via Nose/Hoover
+"nvt/asphere"_fix_nvt_asphere.html - NVT for aspherical particles
+"nvt/sllod"_fix_nvt_sllod.html - NVT for NEMD with SLLOD equations
+"orient/fcc"_fix_orient_fcc.html - add grain boundary migration force
+"planeforce"_fix_planeforce.html - constrain atoms to move in a plane
+"poems"_fix_poems.html - constrain clusters of atoms to move \
   as coupled rigid bodies
-"fix pour"_fix_pour.html - pour new atoms into a granular simulation domain
-"fix print"_fix_print.html - print text and variables during a simulation
-"fix rdf"_fix_rdf.html - compute radial distribution functions
-"fix recenter"_fix_recenter.html - constrain the center-of-mass position \
+"pour"_fix_pour.html - pour new atoms into a granular simulation domain
+"print"_fix_print.html - print text and variables during a simulation
+"rdf"_fix_rdf.html - compute radial distribution functions
+"recenter"_fix_recenter.html - constrain the center-of-mass position \
   of a group of atoms
-"fix rigid"_fix_rigid.html - constrain one or more clusters of atoms to \
+"rigid"_fix_rigid.html - constrain one or more clusters of atoms to \
      move as a rigid body
-"fix setforce"_fix_setforce.html - set the force on each atom
-"fix shake"_fix_shake.html - SHAKE constraints on bonds and/or angles
-"fix spring"_fix_spring.html - apply harmonic spring force to group of atoms
-"fix spring/rg"_fix_spring_rg.html - spring on radius of gyration of \
+"setforce"_fix_setforce.html - set the force on each atom
+"shake"_fix_shake.html - SHAKE constraints on bonds and/or angles
+"spring"_fix_spring.html - apply harmonic spring force to group of atoms
+"spring/rg"_fix_spring_rg.html - spring on radius of gyration of \
      group of atoms
-"fix spring/self"_fix_spring_self.html - spring from each atom to its origin
-"fix temp/rescale"_fix_temp_rescale.html - temperature control by \
+"spring/self"_fix_spring_self.html - spring from each atom to its origin
+"temp/rescale"_fix_temp_rescale.html - temperature control by \
      velocity rescaling
-"fix tmd"_fix_tmd.html - guide a group of atoms to a new configuration
-"fix viscous"_fix_viscous.html - viscous damping for granular simulations
-"fix wall/gran"_fix_wall_gran.html - frictional wall(s) for \
+"tmd"_fix_tmd.html - guide a group of atoms to a new configuration
+"viscous"_fix_viscous.html - viscous damping for granular simulations
+"wall/gran"_fix_wall_gran.html - frictional wall(s) for \
      granular simulations
-"fix wall/lj126"_fix_wall_lj126.html - Lennard-Jones 12-6 wall
-"fix wall/lj93"_fix_wall_lj93.html - Lennard-Jones 9-3 wall
-"fix wall/reflect"_fix_wall_reflect.html - reflecting wall(s)
-"fix wiggle"_fix_wiggle.html - oscillate walls and frozen atoms :ul
+"wall/lj126"_fix_wall_lj126.html - Lennard-Jones 12-6 wall
+"wall/lj93"_fix_wall_lj93.html - Lennard-Jones 9-3 wall
+"wall/reflect"_fix_wall_reflect.html - reflecting wall(s)
+"wiggle"_fix_wiggle.html - oscillate walls and frozen atoms :ul
 
 There are also additional fix styles submitted by users which are
 included in the LAMMPS distribution.  The list of these with links to