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%% BioMed_Central_Tex_Template_v1.05
%% %
% bmc_article.tex ver: 1.05 %
% %
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% %%
%% LaTeX template for BioMed Central %%
%% journal article submissions %%
%% %%
%% <27 January 2006> %%
%% %%
%% %%
%% Uses: %%
%% cite.sty, url.sty, bmc_article.cls %%
%% ifthen.sty. multicol.sty %%
%% %%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% %%
%% For instructions on how to fill out this Tex template %%
%% document please refer to Readme.pdf and the instructions for %%
%% authors page on the biomed central website %%
%% http://www.biomedcentral.com/info/authors/ %%
%% %%
%% Please do not use \input{...} to include other tex files. %%
%% Submit your LaTeX manuscript as one .tex document. %%
%% %%
%% All additional figures and files should be attached %%
%% separately and not embedded in the \TeX\ document itself. %%
%% %%
%% BioMed Central currently use the MikTex distribution of %%
%% TeX for Windows) of TeX and LaTeX. This is available from %%
%% http://www.miktex.org %%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\NeedsTeXFormat{LaTeX2e}[1995/12/01]
\documentclass[10pt]{bmc_article}
% Load packages
\usepackage{cite} % Make references as [1-4], not [1,2,3,4]
\usepackage{url} % Formatting web addresses
\usepackage{ifthen} % Conditional
\usepackage{multicol} %Columns
% \usepackage[utf8]{inputenc} %unicode support
\usepackage[applemac]{inputenc} %applemac support if unicode package fails
% \usepackage[latin1]{inputenc} %UNIX support if unicode package fails
\urlstyle{rm}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% %%
%% If you wish to display your graphics for %%
%% your own use using includegraphic or %%
%% includegraphics, then comment out the %%
%% following two lines of code. %%
%% NB: These line *must* be included when %%
%% submitting to BMC. %%
%% All figure files must be submitted as %%
%% separate graphics through the BMC %%
%% submission process, not included in the %%
%% submitted article. %%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\def\includegraphic{}
\def\includegraphics{}
\setlength{\topmargin}{0.0cm}
\setlength{\textheight}{21.5cm}
\setlength{\oddsidemargin}{0cm}
\setlength{\textwidth}{16.5cm}
\setlength{\columnsep}{0.6cm}
\newboolean{publ}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% %%
%% You may change the following style settings %%
%% Should you wish to format your article %%
%% in a publication style for printing out and %%
%% sharing with colleagues, but ensure that %%
%% before submitting to BMC that the style is %%
%% returned to the Review style setting. %%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Review style settings
\newenvironment{bmcformat}{\begin{raggedright}\baselineskip20pt\sloppy\setboolean{publ}{false}}{\end{raggedright}\baselineskip20pt\sloppy}
% Publication style settings
%\newenvironment{bmcformat}{\fussy\setboolean{publ}{true}}{\fussy}
% Begin ...
\begin{document}
\begin{bmcformat}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% %%
%% Enter the title of your article here %%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% FIXME: fix the title
\title{JChemPaint 3.0}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% %%
%% Enter the authors here %%
%% %%
%% Ensure \and is entered between all but %%
%% the last two authors. This will be %%
%% replaced by a comma in the final article %%
%% %%
%% Ensure there are no trailing spaces at %%
%% the ends of the lines %%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\author{Random Order
\and
Egon Willighagen\correspondingauthor$^{1}$%
\email{Egon Willighagen\correspondingauthor - egon.willighagen@farmbio.uu.se}%
\and
Niels\correspondingauthor$^2$%
\email{Niels - niels@??}
and
Gilleain$^3$%
\email{Gilleain - gilleain@ebi.ac.uk}%
and
Stefan$^3$%
\email{Stefan - stefan@ebi.ac.uk}%
and
Arvid$^3$%
\email{Arvid - arvid@farmbio.uu.se}%
}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% %%
%% Enter the authors' addresses here %%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\address{%
\iid(1)Pharmaceutical Sciences, Uppsala University, Uppsala, SE\\
\iid(2)European Bioinformatics Institute, Hinxton, UK
}%
\maketitle
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% %%
%% The Abstract begins here %%
%% %%
%% The Section headings here are those for %%
%% a Research article submitted to a %%
%% BMC-Series journal. %%
%% %%
%% If your article is not of this type, %%
%% then refer to the Instructions for %%
%% authors on http://www.biomedcentral.com %%
%% and change the section headings %%
%% accordingly. %%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\begin{abstract}
% Do not use inserted blank lines (ie \\) until main body of text.
\paragraph*{Background:} Text for this section of the abstract.
\paragraph*{Results:} Text for this section of the abstract \ldots
\paragraph*{Conclusions:} Text for this section of the abstract \ldots
\end{abstract}
\ifthenelse{\boolean{publ}}{\begin{multicols}{2}}{}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% %%
%% The Main Body begins here %%
%% %%
%% The Section headings here are those for %%
%% a Research article submitted to a %%
%% BMC-Series journal. %%
%% %%
%% If your article is not of this type, %%
%% then refer to the instructions for %%
%% authors on: %%
%% http://www.biomedcentral.com/info/authors%%
%% and change the section headings %%
%% accordingly. %%
%% %%
%% See the Results and Discussion section %%
%% for details on how to create sub-sections%%
%% %%
%% use \cite{...} to cite references %%
%% \cite{koon} and %%
%% \cite{oreg,khar,zvai,xjon,schn,pond} %%
%% \nocite{smith,marg,hunn,advi,koha,mouse}%%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%%%%%%%%%%%%%%%
%% Background %%
%%
\section*{Background}
The internet is becoming a primary communication tool for conducting
scientific research. \ldots On the one hand, increasingly tools are being
used to make the web more machine readble, but on the other hand, human
interaction is still a key component.
Drawing chemical structures is a key activity in querying web resources.
For examples, the NMRShiftDB is such a resource~\cite{Steinbeck2003a} where
NMR spectra of molecules can be looked up by drawing a molecular
substructure. This requires an chemical input editor. For the web, several
approaches are avaiable, including using Java
applets~\cite{Krause2000,Trepalin2006},
% FIXME: add Marvin, JME, Rich' editor
and JavaScript~\cite{PubChemEditor}.
Java applets have the advantage of being rather versatile, but can quickly
lead to large download sizes~\cite{Trepalin2006}.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Results and Discussion %%
%%
\section*{Results and Discussion}
%%%%%%%%%%%%%%%%%%%%%%
\section*{Conclusions}
Text for this section \ldots
%%%%%%%%%%%%%%%%%%
\section*{Methods}
%%%%%%%%%%%%%%%%%%
\section*{Authors contributions}
%%%%%%%%%%%%%%%%%%%%%%%%%%%
\section*{Acknowledgements}
\ifthenelse{\boolean{publ}}{\small}{}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% The Bibliography %%
%% %%
%% Bmc_article.bst will be used to %%
%% create a .BBL file for submission, which includes %%
%% XML structured for BMC. %%
%% %%
%% %%
%% Note that the displayed Bibliography will not %%
%% necessarily be rendered by Latex exactly as specified %%
%% in the online Instructions for Authors. %%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
{\ifthenelse{\boolean{publ}}{\footnotesize}{\small}
\bibliographystyle{bmc_article} % Style BST file
\bibliography{bibliography} } % Bibliography file (usually '*.bib' )
%%%%%%%%%%%
\ifthenelse{\boolean{publ}}{\end{multicols}}{}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% %%
%% Figures %%
%% %%
%% NB: this is for captions and %%
%% Titles. All graphics must be %%
%% submitted separately and NOT %%
%% included in the Tex document %%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%
%% Do not use \listoffigures as most will included as separate files
\section*{Figures}
\subsection*{Figure 1 - Sample figure title}
A short description of the figure content
should go here.
\subsection*{Figure 2 - Sample figure title}
Figure legend text.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% %%
%% Tables %%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Use of \listoftables is discouraged.
%%
\section*{Tables}
\subsection*{Table 1 - Sample table title}
Here is an example of a \emph{small} table in \LaTeX\ using
\verb|\tabular{...}|. This is where the description of the table
should go. \par \mbox{}
\par
\mbox{
\begin{tabular}{|c|c|c|}
\hline \multicolumn{3}{|c|}{My Table}\\ \hline
A1 & B2 & C3 \\ \hline
A2 & ... & .. \\ \hline
A3 & .. & . \\ \hline
\end{tabular}
}
\subsection*{Table 2 - Sample table title}
Large tables are attached as separate files but should
still be described here.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% %%
%% Additional Files %%
%% %%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\section*{Additional Files}
\subsection*{Additional file 1 --- Sample additional file title}
Additional file descriptions text (including details of how to
view the file, if it is in a non-standard format or the file extension). This might
refer to a multi-page table or a figure.
\subsection*{Additional file 2 --- Sample additional file title}
Additional file descriptions text.
\end{bmcformat}
\end{document}