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\documentclass[12pt]{article}
\usepackage{epsfig}
\setlength{\textwidth}{6.75in}
\setlength{\textheight}{7.5in}
\newsavebox{\savepar}
\newenvironment{boxit}{
\begin{minipage}[b]{1in}}
{\end{minipage}\fbox{\usebox{\savepar}}}
\setlength{\hoffset}{0.0in}
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\setlength{\textwidth}{6.5in}
\setcounter{secnumdepth}{4}
\begin{document}
%\def\decaysto{\vbox{
% \hbox{\raise.5ex\hbox{\vrule height10pt}
% \kern-.4025em{$\rightarrow$}}}\kern0.8ex}
\begin{center}
{\Large{\bf CMS Pixel Online Software and Calibrations}}
\end{center}
\begin{center}
\vskip 0.5cm
Anders Ryd ({\it anders.ryd@cornell.edu})\\
Steve Stroiney ({\it srs63@lepp.cornell.edu})\\
Souvik Das ({\it sd259@cornell.edu}) \\
Karl Ecklund ({\it Karl.Ecklund@cern.ch})\\
Josh Thompson ({\it joshua.thompson@cern.ch}) \\
Ben Kreis ({\it benjaminkreis@gmail.com})\\
% (If you make contributions to this document, please add your name above.)\\
\today \\
\end{center}
%%to do:
% i would like to add a plain text explanation of what each supervisor does:
%%%%at each finite state machine transition (some of this is already covered in Configuration secion)
%%%%outside of FSM transitions (ongoing workloops)
\begin{abstract}
This note describes the CMS pixel online software and
calibrations. This note serves both as a reference manual
and a user's guide.
%We might want to separate out the different components later.
\end{abstract}
\newpage
\tableofcontents
\newpage
\section{Introduction}
\input{Introduction}
\section{Pixel DAQ System}
\label{sec:PixelDAQSystem}
\input{PixelDAQSystem}
\section{Online Software Overview}
\label{sect:overview}
\input{OnlineSoftwareOverview}
\section{Pixel Function Manager}
\label{sec:l1fm}
\input{PixelFunctionManager}
\section{Coding practices}
\label{sec:CodingPractices}
\input{CodingPractices}
\section{Configuration Data Management}
\label{sec:ConfigurationDataManagement}
\input{ConfigurationDataManagement}
\section{Configuration Database Interface}
\label{sec:ConfigurationDatabaseInterface}
\input{ConfigurationDatabaseInterface}
\section{Configuration Objects}
\label{sect:configobjects}
\input{ConfigurationObjects}
\section{Usage of configuration data in xdaq applications}
\label{sec:ConfigurationDataUsage}
\input{ConfigurationDataUsage}
\section{Configuration}
\label{sec:configuration}
\input{Configuration}
\section{Event builder configurations}
\label{sec:EventBuilderConfigurations}
\input{EventBuilderConfigurations}
\section{Directory Structure}
\label{directorystructure}
\input{DirectoryStructure}
\section{Calibration Algorithms}
\label{sect:calib}
\input{Calibrations}
\section{Calibration Procedure}
\label{sec:calibproc}
\input{CalibChain}
\section{XDAQ-DCS Interaction}
\label{sec:dcs}
\input{DCS}
\section{Procedures to follow when hardware components are replaced}
\label{sec:hardware}
\input{ReplaceHardware}
\section{Low-level commands}
\label{sec:lowlevel}
\input{LowLevel}
\clearpage
\appendix
\section{FED phase and delay calibration}
\label{App:phaseanddelay}
\input{App_FEDPhaseAndDelay}
\section{Calibration Organization}
\label{App:caliborganize}
\input{CalibOrganization}
\section{Outstanding tasks and improvements}
\label{App:outstanding}
\input{Outstanding}
\clearpage
\bibliographystyle{unsrt}
\bibliography{UsersGuide}
\end{document}