diff --git a/doc/user/analysis.tex b/doc/user/analysis.tex index 16e0e07cd7..2e4d2f3f21 100644 --- a/doc/user/analysis.tex +++ b/doc/user/analysis.tex @@ -207,14 +207,14 @@ To copy the selected frames from the specified trejctory file(s), onto a new file, use \begin{verbatim} -copy +copy [solute] \end{verbatim} To superimpose the selected atoms for each specified frame to the reference coordinates before copying onto a new file, use \begin{verbatim} -super +super [solute] \end{verbatim} The format of the new file is determined from the extension, which diff --git a/doc/user/nwmd.tex b/doc/user/nwmd.tex index 419183bdbb..b843ff524f 100644 --- a/doc/user/nwmd.tex +++ b/doc/user/nwmd.tex @@ -1180,7 +1180,16 @@ to be overwritten. record coord \end{verbatim} specifies the frequency \verb++ in molecular dynamics steps -of writing solvent coordinates to the trajectory file. +of writing coordinates to the trajectory file. +The default is not to record. + +\item +\begin{verbatim} +record coord +\end{verbatim} +specifies the frequency \verb++ in molecular dynamics steps +of writing solvent coordinates to the trajectory file. This keyword +takes precedent over \verb+nfcoor+. The default is not to record. \item @@ -1188,7 +1197,8 @@ The default is not to record. record scoor \end{verbatim} specifies the frequency \verb++ in molecular dynamics steps -of writing solute coordinates to the trajectory file. +of writing solute coordinates to the trajectory file. This keyword +takes precedent over \verb+nfcoor+. The default is not to record. \item @@ -1196,7 +1206,16 @@ The default is not to record. record veloc \end{verbatim} specifies the frequency \verb++ in molecular dynamics steps -of writing solvent velocitiesto the trajectory file. +of writing velocitiesto the trajectory file. +The default is not to record. + +\item +\begin{verbatim} +record veloc +\end{verbatim} +specifies the frequency \verb++ in molecular dynamics steps +of writing solvent velocitiesto the trajectory file. This keyword +takes precedent over \verb+nfvelo+. The default is not to record. \item @@ -1204,7 +1223,8 @@ The default is not to record. record svelo \end{verbatim} specifies the frequency \verb++ in molecular dynamics steps -of writing solute velocities to the trajectory file. +of writing solute velocities to the trajectory file. This keyword +takes precedent over \verb+nfvelo+. The default is not to record. \item diff --git a/doc/user/user.tex b/doc/user/user.tex index c958f913b2..0d56639f9d 100644 --- a/doc/user/user.tex +++ b/doc/user/user.tex @@ -1,7 +1,7 @@ -% $Id: user.tex,v 1.44 2000-04-27 15:31:56 d3j191 Exp $ +% $Id: user.tex,v 1.45 2000-04-28 18:06:23 d3j191 Exp $ %\documentstyle[dvilj,ge,12pt,fleqn]{book} -\documentclass[12pt,fleqn]{book} +\documentclass[10pt,fleqn]{book} \usepackage{html} \usepackage{fullpage} \newif\ifpdf