Added a better introduction and UTF-8 capability in sawsim.nw.

diff --git a/src/sawsim.nw b/src/sawsim.nw
index 660adc0eb43fc4009a90ce3c35add1fb65f0ca5e..7b9c1f2f1b9c2c0dc71ecd3c8d5f13bd22be381e 100644 (file)
--- a/src/sawsim.nw
+++ b/src/sawsim.nw
@@ -20,6 +20,9 @@
 % super selects citations in superscript mode
 % sort&compress automatically sorts and compresses compound citations (\cite{a,b,...})
 
+\usepackage[mathletters]{ucs} % use math fonts to allow Greek UTF-8 in the text
+\usepackage[utf8x]{inputenc}  % allow UTF-8 characters
+
 %\bibliographystyle{ieeetr} % pick the bibliography style, short and sweet
 %\bibliographystyle{plain} % pick the bibliography style, includes dates
 \bibliographystyle{plainnat}
@@ -79,6 +82,21 @@ simulate this unfolding through an explicit time-stepping approach.
 We develop a program in \lang\ to simulate probability of unfolding
 under a constant extension velocity of a chain of globular domains.
 
+In order to extract physical meaning from many mechanical unfolding
+simulations, it is necessary to compare the experimental results
+against the results of simulations using different models and
+parameters.  The model and parameters that best match the experimental
+data provide the ‘best’ model for that experiment.
+
+Previous mechanical unfolding studies have rolled their own
+simulations for modelling their experiment, and there has been little
+exchange and standardization of these simulations between groups.
+The \prog\ program attempts to fill this gap, providing a flexible,
+extensible, \emph{community} program, to make it easier for groups
+to share the burden and increase the transparency of data analysis.
+
+‘Sawsim’ is blend of ‘sawtooth simulation’.
+
 \subsection{Related work}
 
 TODO References
@@ -88,6 +106,9 @@ TODO References
 This document was written in \citetalias{sw:noweb} with code blocks in
 \lang\ and comment blocks in \LaTeX.
 
+\subsection{System Requirements and Dependencies}
+
+
 \subsection{Change Log}
 
 Version 0.0 used only the unfolded domain WLC to determine the tension