relax SVN archive

Added a subsubsection label to the data model chapter of the user manual.

Spacing fix.

Removed the \pycodestar{} references in the development chapter.

This command has been deleted as \newcommand cannot have \verb inside it! The \pycodestar{x}
references have been changed to \verb*!x!.

Removed \verb from the \newcommand definitions as that is forbidden in LaTeX.

Now Python code is formatted using a small TT font.

Added a section label to the intro chapter of the user manual.

Modified the dauvergne_protocol sample script to handle tryptophan indole NE1 data.

The citations chapter is now included in the HTML version of the user manual.

For some reason, a file named 'cite.tex' cannot be handled by latex2html.

The latex2html compilation of the user manual now ignores the \bibitem{} commands.

This is needed for the HTML version of the user manual.

Fixed a section titled 'Introduction' clashing with the intro chapter of the user manual.

Fixes for the user function icons in the HTML version of the user manual.

These icons are now placed on the correct HTML page.