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\section{Analysis Code} |
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\section{\label{sec:analysis}Analysis Code} |
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\subsection{Static Property Analysis} |
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\subsection{\label{subSec:staticProbs}Static Property Analysis} |
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The static properties of the trajectories are analyzed with the |
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program \texttt{staticProps}. The code is capable of calculating the following |
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pair correlations between species A and B: |
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user to specify more than one property be calculated in single run, |
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preventing the need to read a file multiple times. |
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\subsection{Dynamic Property Analysis} |
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\subsection{\label{dynamicProps}Dynamic Property Analysis} |
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The dynamic properties of a trajectory are calculated with the program |
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\texttt{dynamicProps}. The program will calculate the following properties: |
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\begin{gather} |
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multiple reads on the same file. |
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\begin{figure} |
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\parbox{30mm}{This is where my wonderful diagram of our memory allocation scheme will go.} |
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\caption{This diagram illustrates the dynamic memory allocation used by \texttt{dynamicProps}} |
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\includegraphics[angle=-90,width=80mm]{dynamicPropsMem.eps} |
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\caption{This diagram illustrates the dynamic memory allocation used by \texttt{dynamicProps}, which follows the scheme: $\sum^{N_{\text{memory blocks}}}_{i=1}[ \operatorname{self}(i) + \sum^{N_{\text{memory blocks}}}_{j>i} \operatorname{cross}(i,j)]$. The shaded region represents the self correlation of the memory block, and the open blocks are read one at a time and the cross correlations between blocks are calculated.} |
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\label{fig:dynamicPropsMemory} |
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\end{figure} |
