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diagram of Visitor patten.} \label{appendixFig:visitorUML} |
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\end{figure} |
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%\begin{figure} |
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%\centering |
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%\includegraphics[width=\linewidth]{hierarchy.eps} |
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%\caption[Class hierarchy for ojects in {\sc OOPSE}]{ A diagram of |
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%the class hierarchy. |
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%\begin{itemize} |
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%\item A {\bf StuntDouble} is {\it any} object that can be manipulated by the |
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%integrators and minimizers. |
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%\item An {\bf Atom} is a fundamental point-particle that can be moved around during a simulation. |
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%\item A {\bf DirectionalAtom} is an atom which has {\it orientational} as well as translational degrees of freedom. |
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%\item A {\bf RigidBody} is a collection of {\bf Atom}s or {\bf |
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%DirectionalAtom}s which behaves as a single unit. |
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%\end{itemize} |
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%} \label{oopseFig:hierarchy} |
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%\end{figure} |
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\begin{figure} |
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> |
\centering |
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> |
\includegraphics[width=\linewidth]{hierarchy.eps} |
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\caption[Class hierarchy for ojects in {\sc OOPSE}]{ A diagram of |
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the class hierarchy. } \label{oopseFig:hierarchy} |
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> |
\end{figure} |
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|
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\begin{lstlisting}[float,caption={[The implementation of Visitor pattern (II)]Source code of the element classes.},label={appendixScheme:element}] |
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|
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on the specifics of the simulation). The names of rigid bodies are |
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generated automatically. For example, the name of the first rigid |
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body in a DMPC molecule is DMPC\_RB\_0. |
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+ |
\begin{itemize} |
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\item A {\bf StuntDouble} is {\it any} object that can be manipulated by the |
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integrators and minimizers. |
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\item An {\bf Atom} is a fundamental point-particle that can be moved around during a simulation. |
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\item A {\bf DirectionalAtom} is an atom which has {\it orientational} as well as translational degrees of freedom. |
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+ |
\item A {\bf RigidBody} is a collection of {\bf Atom}s or {\bf |
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DirectionalAtom}s which behaves as a single unit. |
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\end{itemize} |
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|
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\section{\label{appendixSection:syntax}Syntax of the Select Command} |
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|