From f4f7e8b1b5825a4970a68992925c4f7ee38bb97f Mon Sep 17 00:00:00 2001
From: sjplimp <sjplimp@f3b2605a-c512-4ea7-a41b-209d697bcdaa>
Date: Fri, 9 May 2014 16:23:11 +0000
Subject: [PATCH] git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@11961
 f3b2605a-c512-4ea7-a41b-209d697bcdaa

---
 doc/fix_adapt_fep.html | 24 +++++++++++++-----------
 doc/fix_adapt_fep.txt  | 26 +++++++++++++-------------
 2 files changed, 26 insertions(+), 24 deletions(-)

diff --git a/doc/fix_adapt_fep.html b/doc/fix_adapt_fep.html
index ebd1434bf8..ffc2d9a8d1 100644
--- a/doc/fix_adapt_fep.html
+++ b/doc/fix_adapt_fep.html
@@ -64,13 +64,16 @@ fix 1 all adapt/fep 10 atom diameter 1 v_size
 <P><B>Description:</B>
 </P>
 <P>Change or adapt one or more specific simulation attributes or settings
-over time as a simulation runs. 
+over time as a simulation runs.
 </P>
-<P>This is a version of the <A HREF = "fix_adapt.html">fix_adapt</A> with two
-differences, 
+<P>This is an enhanced version of the <A HREF = "fix_adapt.html">fix_adapt</A> command
+with two differences,
 </P>
-<UL><LI>It is possible to modify the charges of chosen atom types only, instead of scaling all the charges in the system.
-<LI>There is a new option <I>after</I> for better compatibility with "fixave/time". 
+<UL><LI>It is possible to modify the charges of chosen atom types only,
+instead of scaling all the charges in the system. 
+
+<LI>There is a new option <I>after</I> for better compatibility with "fix
+ave/time". 
 </UL>
 <P>This version is suited for free energy calculations using
 <A HREF = "compute_ti.html">compute_ti</A> or <A HREF = "compute_fep.html">compute_fep</A>.
@@ -98,10 +101,10 @@ the parameters themselves are actually altered; make sure you use the
 initial values after the run.
 </P>
 <P>If the <I>after</I> keyword is set to <I>yes</I>, then the parameters are
-changed one timestep after the multiple of N. In this manner, if a
-fix such as "fix ave/time" is used to calculate averages at every N
+changed one timestep after the multiple of N. In this manner, if a fix
+such as "fix ave/time" is used to calculate averages at every N
 timesteps, all the contributions to the average will be obtained with
-the same values of the parameters. 
+the same values of the parameters.
 </P>
 <HR>
 
@@ -259,9 +262,8 @@ This fix is not invoked during <A HREF = "minimize.html">energy minimization</A>
 </P>
 <P><B>Related commands:</B>
 </P>
-<P><A HREF = "compute_fep.html">compute fep</A>
-<A HREF = "fix_adapt.html">fix_adapt</A>
-<A HREF = "compute_ti.html">compute ti</A>
+<P><A HREF = "compute_fep.html">compute fep</A>, <A HREF = "fix_adapt.html">fix_adapt</A>, <A HREF = "compute_ti.html">compute
+ti</A>
 </P>
 <P><B>Default:</B>
 </P>
diff --git a/doc/fix_adapt_fep.txt b/doc/fix_adapt_fep.txt
index 7921ea76be..db795ef853 100644
--- a/doc/fix_adapt_fep.txt
+++ b/doc/fix_adapt_fep.txt
@@ -52,15 +52,16 @@ fix 1 all adapt/fep 10 atom diameter 1 v_size :pre
 [Description:]
 
 Change or adapt one or more specific simulation attributes or settings
-over time as a simulation runs. 
+over time as a simulation runs.
 
-This is a version of the "fix_adapt"_fix_adapt.html with two
-differences, 
+This is an enhanced version of the "fix_adapt"_fix_adapt.html command
+with two differences,
 
-It is possible to modify the charges of chosen atom types only, \
-instead of scaling all the charges in the system.
-There is a new option {after} for better compatibility with "fix\
-ave/time". :ul
+It is possible to modify the charges of chosen atom types only,
+instead of scaling all the charges in the system. :ulb,l
+
+There is a new option {after} for better compatibility with "fix
+ave/time". :l,ule
 
 This version is suited for free energy calculations using
 "compute_ti"_compute_ti.html or "compute_fep"_compute_fep.html.
@@ -88,10 +89,10 @@ the parameters themselves are actually altered; make sure you use the
 initial values after the run.
 
 If the {after} keyword is set to {yes}, then the parameters are
-changed one timestep after the multiple of N. In this manner, if a
-fix such as "fix ave/time" is used to calculate averages at every N
+changed one timestep after the multiple of N. In this manner, if a fix
+such as "fix ave/time" is used to calculate averages at every N
 timesteps, all the contributions to the average will be obtained with
-the same values of the parameters. 
+the same values of the parameters.
 
 :line
 
@@ -247,9 +248,8 @@ This fix is not invoked during "energy minimization"_minimize.html.
 
 [Related commands:]
 
-"compute fep"_compute_fep.html
-"fix_adapt"_fix_adapt.html
-"compute ti"_compute_ti.html
+"compute fep"_compute_fep.html, "fix_adapt"_fix_adapt.html, "compute
+ti"_compute_ti.html
 
 [Default:]