1.1 --- /dev/null	Thu Jan 01 00:00:00 1970 +0000
     1.2 +++ b/thesis/rlm-cortex-meng.tex	Thu Mar 27 17:57:01 2014 -0400
     1.3 @@ -0,0 +1,138 @@
     1.4 +% -*- Mode:TeX -*-
     1.5 +
     1.6 +%% IMPORTANT: The official thesis specifications are available at:
     1.7 +%%            http://libraries.mit.edu/archives/thesis-specs/
     1.8 +%%
     1.9 +%%            Please verify your thesis' formatting and copyright
    1.10 +%%            assignment before submission.  If you notice any
    1.11 +%%            discrepancies between these templates and the 
    1.12 +%%            MIT Libraries' specs, please let us know
    1.13 +%%            by e-mailing thesis@mit.edu
    1.14 +
    1.15 +%% The documentclass options along with the pagestyle can be used to generate
    1.16 +%% a technical report, a draft copy, or a regular thesis.  You may need to
    1.17 +%% re-specify the pagestyle after you \include  cover.tex.  For more
    1.18 +%% information, see the first few lines of mitthesis.cls. 
    1.19 +
    1.20 +%\documentclass[12pt,vi,twoside]{mitthesis}
    1.21 +%%
    1.22 +%%  If you want your thesis copyright to you instead of MIT, use the
    1.23 +%%  ``vi'' option, as above.
    1.24 +%%
    1.25 +%\documentclass[12pt,twoside,leftblank]{mitthesis}
    1.26 +%%
    1.27 +%% If you want blank pages before new chapters to be labelled ``This
    1.28 +%% Page Intentionally Left Blank'', use the ``leftblank'' option, as
    1.29 +%% above. 
    1.30 +
    1.31 +\documentclass[12pt,twoside,singlespace,vi]{mitthesis}
    1.32 +%\documentclass[12pt,twoside,vi]{mitthesis}
    1.33 +\usepackage[utf8]{inputenc}
    1.34 +\usepackage[T1]{fontenc}
    1.35 +\usepackage{fixltx2e}
    1.36 +\usepackage{graphicx}
    1.37 +\usepackage{longtable}
    1.38 +\usepackage{float}
    1.39 +\usepackage{wrapfig}
    1.40 +\usepackage{rotating}
    1.41 +\usepackage[normalem]{ulem}
    1.42 +\usepackage{amsmath}
    1.43 +\usepackage{textcomp}
    1.44 +\usepackage{marvosym}
    1.45 +\usepackage{wasysym}
    1.46 +\usepackage{amssymb}
    1.47 +\usepackage{hyperref}
    1.48 +\usepackage{libertine}
    1.49 +\usepackage{inconsolata}
    1.50 +\usepackage{rotating}
    1.51 +\usepackage{caption}
    1.52 +
    1.53 +%\usepackage{afterpage}
    1.54 +
    1.55 +%\afterpage{\clearpage}          %
    1.56 +
    1.57 +\usepackage[backend=bibtex,style=alphabetic]{biblatex}
    1.58 +\addbibresource{cortex.bib}
    1.59 +
    1.60 +\usepackage{xcolor}
    1.61 +\definecolor{dark-red}{rgb}{0.4,0.15,0.15}
    1.62 +\definecolor{dark-blue}{rgb}{0.15,0.4,0.15}
    1.63 +\definecolor{medium-blue}{rgb}{0,0,0.5}
    1.64 +\hypersetup{
    1.65 +    colorlinks, linkcolor={dark-red},
    1.66 +    citecolor={dark-blue}, urlcolor={medium-blue}
    1.67 +}
    1.68 +
    1.69 +\newenvironment{code}{\captionsetup{type=listing}}{}
    1.70 +
    1.71 +\renewcommand{\thesection}{\arabic{section}}
    1.72 +\renewcommand{\thefigure}{\arabic{figure}}
    1.73 +
    1.74 +%%%%% better source code display
    1.75 +\usepackage{minted}
    1.76 +
    1.77 +%% dyl fonts
    1.78 +
    1.79 +% \usemintedstyle{friendly}
    1.80 +% \usemintedstyle{perldoc}
    1.81 +%\definecolor{bg}{rgb}{0.95,0.95,0.95}
    1.82 +\definecolor{bg}{rgb}{0.625,0,0}
    1.83 +\usemintedstyle{default}
    1.84 +\newcommand{\why}[1]{\\ \par{\footnotesize #1}}
    1.85 +%\setmonofont[Scale=0.9,BoldFont={Inconsolata Bold}]{Inconsolata}
    1.86 +
    1.87 +%\usepackage[gray]{xcolor}
    1.88 +\newminted{clojure}{fontsize=\footnotesize}
    1.89 +%\newminted{clojure}{fontsize=\footnotesize,bgcolor=bg}
    1.90 +%\newminted{clojure}{fontsize=\scriptsize}
    1.91 +
    1.92 +%\usepackage{lgrind}
    1.93 +\pagestyle{plain}
    1.94 +
    1.95 +
    1.96 +%% % Alter some LaTeX defaults for better treatment of figures:
    1.97 +%% % See p.105 of "TeX Unbound" for suggested values.
    1.98 +%% % See pp. 199-200 of Lamport's "LaTeX" book for details.
    1.99 +%% %   General parameters, for ALL pages:
   1.100 +%% \renewcommand{\topfraction}{0.9}	% max fraction of floats at top
   1.101 +%% \renewcommand{\bottomfraction}{0.8}	% max fraction of floats at bottom
   1.102 +%% %   Parameters for TEXT pages (not float pages):
   1.103 +%% \setcounter{topnumber}{2}
   1.104 +%% \setcounter{bottomnumber}{2}
   1.105 +%% \setcounter{totalnumber}{4}     % 2 may work better
   1.106 +%% \setcounter{dbltopnumber}{2}    % for 2-column pages
   1.107 +%% \renewcommand{\dbltopfraction}{0.9}	% fit big float above 2-col. text
   1.108 +%% \renewcommand{\textfraction}{0.07}	% allow minimal text w. figs
   1.109 +%% %   Parameters for FLOAT pages (not text pages):
   1.110 +%% \renewcommand{\floatpagefraction}{0.7}	% require fuller float pages
   1.111 +%% % N.B.: floatpagefraction MUST be less than topfraction !!
   1.112 +%% \renewcommand{\dblfloatpagefraction}{0.7}	% require fuller float pages
   1.113 +%% % remember to use [htp] or [htpb] for placement
   1.114 +
   1.115 +
   1.116 +\begin{document}
   1.117 +
   1.118 +\include{cover}
   1.119 +% Some departments (e.g. 5) require an additional signature page.  See
   1.120 +% signature.tex for more information and uncomment the following line if
   1.121 +% applicable.
   1.122 +% \include{signature}
   1.123 +\pagestyle{plain}
   1.124 +\tableofcontents
   1.125 +%\newpage
   1.126 +%\listoffigures
   1.127 +%\newpage
   1.128 +%\listoftables
   1.129 +\include{cortex}
   1.130 +\nocite{*}
   1.131 +%\include{chap2}
   1.132 +\appendix
   1.133 +\begin{singlespace}
   1.134 +%\bibliographystyle{agsm}
   1.135 +%\bibliographystyle{apa}
   1.136 +%\bibliographystyle{plainnat}
   1.137 +\include{user-guide}
   1.138 +\printbibliography
   1.139 +\end{singlespace}
   1.140 +\end{document}
   1.141 +