[Pymerase-cvs-commit] Docs/faq faq.tex,NONE,1.1

[<ki...@us...>]

Update of /cvsroot/pymerase/Docs/faq
In directory sc8-pr-cvs1:/tmp/cvs-serv22278

Added Files:
	faq.tex 
Log Message:
First FAQ for Pymerase


--- NEW FILE: faq.tex ---
% Pymerase Docs - FAQ
% Copyright (c) California Institute of Technology
%
% Authors: Brandon King
% $Revision: 1.1 $
% Modified $Date: 2003/03/21 00:36:40 $

\documentclass{article}
\usepackage{graphicx}
\usepackage{color}
\usepackage[margin=3cm,noheadfoot]{geometry}

\setlength{\parindent}{0in}
\setlength{\parskip}{2mm}

%colors
\newcommand{\cb}{\color{blue}}

%new commands
\newcommand{\pymlink}{http://pymerase.sf.net}

%document
\begin{document}

%title page
\begin{titlepage}
\title{\cb Pymerase Docs - FAQ}
\author{Brandon King \& Diane Trout\\
Copyright \copyright  California Institute of Technology}
\date{Version 0.1.1\\\today}
\maketitle
\thispagestyle{empty}
\end{titlepage}

\tableofcontents
\thispagestyle{empty}
\newpage

%Document Body
\setcounter{page}{1}

\section{\cb FAQ - General}
\subsection{\cb Why the name ''Pymerase''?}
Pymerase is the combination of 'Python', the primary language Pymerase
is written in, and 'Polymerase'. Polymerase, in short, is a molecule
which copies/converts DNA into RNA. We figured that Pymerase had
similar functionality in that it took table.dtd XML (DNA) files and
converted them into other things, such as SQL statements (RNA) which
is then used to create a database (Protein).

\subsection{\cb Where was Pymerase originally developed?}
Pymerase was originally developed in the Wold Lab at the California
Institute of Technology (Caltech).

\subsection{\cb Who originally developed Pymerase?}
Diane Trout and Brandon King originally developed Pymerase in the Wold
Lab at Caltech. Barbara Wold is the principal invesigator incharge of
the project at Caltech, along with collaborator Eric Mjolsness of
UC~Irvine.

\subsection{\cb Why was the original purpose of Pymerase?}
The original purpose of pymerase was to generate a Python Database API
for the GeneX Microarray Gene Expression Database. As development
progressed Pymerase was made more generic to support other projects
including Sigmoid and MAGE.

\section{\cb FAQ - Input Modules}
\subsection{\cb parseGenexSchemaXML}
\subsubsection{\cb Can the parseGenexSchemaXML input module only parse the
  GeneX project schema?}
No. It's called parseGenexSchemaXML to give credit to the GeneX
project for coming up with the file format used for this particular
input module and the schema of the GeneX 2.x project. The format can
be used to make any number of schemas using it. Special thanks goes to
Jason Stewart of OpenInformatics.org for the original design of this
XML format.

\end{document}