\NeedsTeXFormat{LaTeX2e}
\ProvidesPackage{thesisdefs}[2008/01/01 Definitions for my thesis]

\RequirePackage{ifpdf}

% Cross-reference handling %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\let\theHmemhycontfloat\empty
\let\chapterautorefname\empty
\let\sectionautorefname\empty
\let\subsectionautorefname\empty
\let\subsubsectionautorefname\empty
\RequirePackage[pdfborder={0 0 0}]{hyperref}

\RequirePackage{url}
\renewcommand{\chapterautorefname}{Chapter}
\renewcommand{\sectionautorefname}{Section}
\renewcommand{\subsectionautorefname}{Subsection}
\renewcommand{\subsubsectionautorefname}{Subsubsection}

% Basic typography %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\ifpdf
\RequirePackage{microtype}
\fi
\RequirePackage[overload]{textcase}
\RequirePackage{xspace}

% Yes, this sucks.
\DoubleSpacing

% Graphics %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\RequirePackage{graphicx}
\RequirePackage{color}
\RequirePackage{tikz}
\usetikzlibrary{calc}
\usetikzlibrary{fit}
\usetikzlibrary{shapes.geometric}

\RequirePackage{natbib}
\newcommand{\thesisbibstyle}{plainnat}

\RequirePackage{wrapfig}

%\RequirePackage{nomencl}
%\makenomenclature

% Mathematical layout %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\RequirePackage{amsmath}
\RequirePackage{amssymb}
\RequirePackage{amsthm}
\RequirePackage{nicefrac}

\newtheoremstyle{ejrplain}%
 {0pt}% space above
 {0pt}% space below
 {}% body font
 {}% indent amount
 {\bfseries}% head font
 {:}% after-head punct.
 {.5em}% after-head space
 {}% head spec?

\theoremstyle{ejrplain}
\newtheorem{thm}{Theorem}[section]
\newcommand{\thmautorefname}{Theorem}
\newtheorem{lem}[thm]{Lemma}
\newcommand{\lemautorefname}{Lemma}
\newtheorem{prop}[thm]{Proposition}
\newcommand{\propautorefname}{Proposition}
\newtheorem{cor}[thm]{Corollary}
\newcommand{\corautorefname}{Corollary}

\theoremstyle{ejrplain}
\newtheorem{defn}{Definition}[section]
\newcommand{\defnautorefname}{Definition}
\newtheorem{conject}{Conjecture}[section]
\newcommand{\conjectautorefname}{Conjecture}
\newtheorem{examp}{Example}[section]
\newcommand{\exampautorefname}{Example}

\theoremstyle{ejrplain}
\newtheorem{rem}{Remark}[section]
\newcommand{\remautorefname}{Remark}
\newtheorem{note}{Note}[section]
\newcommand{\noteautorefname}{Note}

% org-mode fun %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\newenvironment{orgtabular}[1]{\begin{tabular}{#1}}{\end{tabular}}
%\newenvironment{orgtabularx}[2]{\begin{tabularx}{#1}{#2}}{\end{tabularx}}

% Code %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\RequirePackage[lined,linesnumbered,commentsnumbered,algoruled]{algorithm2e}
\SetKw{KwBreak}{break}
\renewcommand{\nlSty}[1]{\textsf{\tiny #1}}

% The following works around my brain's autoref breakage.
\newcommand{\algref}[1]{\hyperref[#1]{Algorithm~\ref*{#1}}}
\newcommand{\lineref}[1]{\hyperref[#1]{line~\ref*{#1}}}
\newcommand{\Lineref}[1]{\hyperref[#1]{Line~\ref*{#1}}}

\RequirePackage{listings}
\lstloadlanguages{Octave,R,SQL}
\lstset{language=Octave,columns=fullflexible,basicstyle={\small\sffamily},lineskip=-.75\baselineskip}
\lstset{firstnumber=1,numbers=left,numberstyle=\tiny,
  stepnumber=5,numbersep=5pt,showstringspaces=false,stringstyle={\rmfamily}}

\newfloat[chapter]{srccode}{lol}{Listing}
\newcommand{\srccodeautorefname}{Listing}

% Symbols %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\newcommand{\abs}[1]{|{#1}|}
%\newcommand{\det}{\operatorname{det}}
\newcommand{\bigabs}[1]{\left|{#1}\right|}
\newcommand{\matnorm}[2]{\|{#1}\|_{#2}}
\newcommand{\bigmatnorm}[2]{\left\|{#1}\right\|_{#2}}
\newcommand{\genericnorm}[1]{\|{#1}\|}
\newcommand{\biggenericnorm}[1]{\left\|{#1}\right\|}
\newcommand{\infnorm}[1]{\matnorm{#1}{\infty}}
\newcommand{\biginfnorm}[1]{\bigmatnorm{#1}{\infty}}
\newcommand{\twonorm}[1]{\matnorm{#1}{2}}
\newcommand{\bigtwonorm}[1]{\bigmatnorm{#1}{2}}
\newcommand{\onenorm}[1]{\matnorm{#1}{1}}
\newcommand{\bigonenorm}[1]{\bigmatnorm{#1}{1}}

\newcommand{\conj}[1]{\overline{#1}}
\newcommand{\transp}[1]{{#1}^{T}}
\newcommand{\herm}[1]{{#1}^{H}}
\newcommand{\Tr}{\operatorname{Tr}}

\newcommand{\cond}{\operatorname{cond}}
\newcommand{\colcond}{\operatorname{colcond}}
\newcommand{\ccond}{\operatorname{ccond}}
\newcommand{\colccond}{\operatorname{colccond}}
\newcommand{\ckappa}{\operatorname{c}\kappa}
\newcommand{\diag}{\operatorname{diag}}
\newcommand{\sign}{\operatorname{sign}}
\newcommand{\dreal}{\operatorname{real}}
\newcommand{\dimag}{\operatorname{imag}}
\newcommand{\absone}{\operatorname{abs1}}

\newcommand{\perturb}[1]{\tilde{#1}}

\newcommand{\octcode}[1]{\lstinline[language=Octave]!#1!}
\newcommand{\Rcode}[1]{\lstinline[language=R]!#1!}

\newcommand{\myname}{E.~Jason Riedy}


\newcommand{\iterof}[2]{{#1}^{(#2)}}
\newcommand{\xini}{\iterof{x}{0}}
%\newcommand{\xcomp}{\xini}
\newcommand{\xati}{\iterof{x}{i}}
\newcommand{\xafteri}{\iterof{x}{i+1}}
\newcommand{\dxati}{\iterof{\dx}{i}}
\newcommand{\dxafteri}{\iterof{\dx}{i+1}}
\newcommand{\xbeforei}{\iterof{x}{i-1}}
\newcommand{\dxbeforei}{\iterof{\dx}{i-1}}
\newcommand{\Dxati}{\iterof{\Dx}{i}}
\newcommand{\Dxbeforei}{\iterof{\Dx}{i-1}}

\newcommand{\ithstep}{$i$\textsuperscript{th} step\xspace}

\newcommand{\yini}{\iterof{y}{0}}
%\newcommand{\ycomp}{\yini}
\newcommand{\yati}{\iterof{y}{i}}
\newcommand{\yafteri}{\iterof{y}{i+1}}
\newcommand{\ybeforei}{\iterof{y}{i-1}}
\newcommand{\dyati}{\iterof{\dy}{i}}
\newcommand{\dyafteri}{\iterof{\dy}{i+1}}
\newcommand{\dybeforei}{\iterof{\dy}{i-1}}
\newcommand{\Dyati}{\iterof{\Dy}{i}}
\newcommand{\Dyafteri}{\iterof{\Dy}{i+1}}
\newcommand{\Dybeforei}{\iterof{\Dy}{i-1}}

\newcommand{\rati}{\iterof{r}{i}}
\newcommand{\rbeforei}{\iterof{r}{i-1}}
\newcommand{\Drati}{\iterof{\Dr}{i}}
\newcommand{\Drbeforei}{\iterof{\Dr}{i-1}}

\newcommand{\DAati}{\iterof{\DA}{i}}
\newcommand{\DAafteri}{\iterof{\DA}{i+1}}
\newcommand{\DAbeforei}{\iterof{\DA}{i-1}}

\newcommand{\errati}{\iterof{e}{i}}
\newcommand{\errbeforei}{\iterof{e}{i-1}}
\newcommand{\errafteri}{\iterof{e}{i+1}}

\newcommand{\hAati}{\iterof{\hat{A}}{i}}

%\newcommand{\markcomputed}[1]{\widehat{#1}}
\newcommand{\markcomputed}[1]{\widetilde{#1}}
%\newcommand{\xcomp}{\markcomputed{x}}
\newcommand{\xcomp}{y}
\newcommand{\Acomp}{\markcomputed{A}}
\newcommand{\bcomp}{\markcomputed{b}}

\newcommand{\dx}{dx}
\newcommand{\dy}{dy}

\newcommand{\errinchar}{\delta}
\newcommand{\errin}[1]{\errinchar #1}
\newcommand{\DA}{\errin{A}}
\newcommand{\Db}{\errin{b}}
\newcommand{\Dx}{\errin{x}}
\newcommand{\Dy}{\errin{y}}
\newcommand{\Dr}{\errin{r}}

\newcommand{\scalemat}[1]{D_{#1}}
\newcommand{\sclnX}{\scalemat{\infnorm{x}}}
\newcommand{\sclX}{\scalemat{\abs{x}}}
\newcommand{\sclnY}{\scalemat{\infnorm{y}}}
\newcommand{\sclY}{\scalemat{\abs{y}}}

\newcommand{\alldim}{:}

\newcommand{\baseprec}{\varepsilon}
%\newcommand{\aprec}{\epsilon}
\newcommand{\aprec}{\baseprec}
\newcommand{\workingprec}{\baseprec_w}
\newcommand{\solveprec}{\workingprec}
\newcommand{\xprec}{\baseprec_x}
\newcommand{\rprec}{\baseprec_r}

\newcommand{\maxrd}{n_r}
\newcommand{\maxrowdeg}[1]{n_r(#1)}
\newcommand{\pvgrw}{g}
\newcommand{\colpvgrw}{\pvgrw_c}

\newcommand{\makevect}[2]{{#1}_{#2}}
\newcommand{\zerovect}[1]{\makevect{0}{#1}}
\newcommand{\onevect}[1]{\makevect{1}{#1}}

% \newcommand{\nferr}{\nu}
% \newcommand{\cferr}{\xi}
% \newcommand{\nberr}{\eta}
% \newcommand{\cberr}{\omega}
% \newcommand{\sberr}{\varsigma}
\newcommand{\nferr}{\operatorname{nferr}}
\newcommand{\cferr}{\operatorname{cferr}}
\newcommand{\nberr}{\operatorname{nberr}}
\newcommand{\cberr}{\operatorname{cberr}}
\newcommand{\cgberr}{\operatorname{cberr}_{E,f}}
\newcommand{\sberr}{\operatorname{sberr}}
\newcommand{\colberr}{\operatorname{colberr}}

\newcommand{\defeq}{\overset{\text{\tiny def}}{=}}

\newcommand{\suchthat}{:}

\newcommand{\IEEESTD}{\textsc{Ieee754}\xspace}
\newcommand{\IEEESTDREV}{\textsc{Ieee754r}\xspace}
\newcommand{\ieeestd}{\IEEESTD}
\newcommand{\ieeestdrev}{\IEEESTDREV}
\newcommand{\ieeesingle}{bin32}
\newcommand{\ieeedouble}{bin64}
\newcommand{\BLAS}{\textsc{Blas}\xspace}
\newcommand{\XBLAS}{\textsc{XBlas}\xspace}
\newcommand{\LAPACK}{\textsc{Lapack}\xspace}
\newcommand{\lapackfn}[1]{\textit{x}\texttt{\MakeUppercase{#1}}}
\newcommand{\scalapackfn}[1]{\texttt{P}\lapackfn{#1}}

\newcommand{\Intel}{Intel\textsuperscript{\textregistered}\xspace}
\newcommand{\matlab}{\textsc{Matlab}\textsuperscript{\textregistered}\xspace}

% Editorial marking %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\newcommand{\XXX}{\textcolor{red}{XXX:}\xspace}

\endinput
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