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\begin{document}

\title{EBImage installation}
\author{Gregoire Pau, Oleg Sklyar, Wolfgang Huber\\\email{gpau@ebi.ac.uk}}
\maketitle

\section{UNIX/Linux}

EBImage requires the following softwares/libraries to be installed:
\begin{itemize}
\item \pkg{pkg-config}
\item \pkg{gtk+-2.0}
\item \pkg{ImageMagick}
\end{itemize}

On UNIX/Linux systems, \pkg{pkg-config} and \pkg{gtk+-2.0} are most likely present. 
The \pkg{ImageMagick} library is available in many UNIX distributions (Ubuntu,
Debian, Fedora, Suse). Alternatively, you may download and compile it 
from \url{http://www.imagemagick.org/script/install-source.php#unix}.
Please note that the development versions (with C header and libraries) of 
\pkg{gtk+-2.0} and \pkg{ImageMagick} are required to install EBImage.\\

Check if \pkg{gtk+-2.0} works by typing in a terminal \code{gtk-demo}. Check if 
\pkg{ImageMagick} works by typing \code{convert -version}. Check if the libraries are correctly
installed by typing \code{pkg-config gtk+-2.0 -{}-libs} and \code{Magick-config -{}-libs}.
You should see some output without error messages.\\

EBImage is ready to be installed. Just type \code{biocLite("EBImage")} in an R terminal
to install EBImage. Otherwise, download the EBImage {\bf source} package from the Bioconductor website 
at \url{http://www.bioconductor.org/packages/release/bioc/html/EBImage.html} and type 
\code{R CMD INSTALL x}, where \code{x} is the name of the downloaded package.\\

Please note that in some Linux distributions, such as Ubuntu 9.04, the MagickWand subcomponent is not part of the core ImageMagick package and
should be installed separately. \\

EBImage works fine with gtk+-2.0 2.12.9 and ImageMagick 6.3.7 Q16.

\section{MacOS systems}

EBImage requires the following softwares/libraries to be installed:
\begin{itemize}
\item \pkg{pkg-config}
\item \pkg{gtk+-2.0}
\item \pkg{ImageMagick}
\end{itemize}

These softwares can be easily installed with the \pkg{MacPorts} package management
software, available at \url{http://www.macports.org}. To install \pkg{MacPorts}, 
you first need to install the XCode developement suite and the X11 SDK.
These tools are located in the DVDs shipped with your Mac.\\

Next, install the packages \pkg{gtk+-2.0} and \pkg{ImageMagick} by 
typing the commands \code{sudo port install ImageMagick} and \code{sudo port install gtk2}
in a terminal. The package \pkg{pkg-config} is automatically installed as a 
dependency of \pkg{gtk+-2.0}.\\

Check if \pkg{gtk+-2.0} works by typing in a terminal \code{gtk-demo}. Check if 
\pkg{ImageMagick} works by typing \code{convert -version}. Check if the libraries are correctly
installed by typing \code{pkg-config gtk+-2.0 -{}-libs} and \code{Magick-config -{}-libs}.
You should see some output, without error messages, and notice that all libraries are located in 
\code{/opt/local/lib}. \\

EBImage is ready to be installed. Just download the EBImage {\bf source} package
from the Bioconductor website at \url{http://www.bioconductor.org/packages/release/bioc/html/EBImage.html}
and type in a terminal \code{R CMD INSTALL x}, where \code{x} is the name of the downloaded package.\\

Before using EBImage, you have to start the X11 server located in the \code{Application/Utilities} directory.
Start R and type `library(EBImage) ; example(EBImage)' to check whether the installation of EBImage went fine.\\

Most installation problems come from:
\begin{itemize}
\item Installation of the EBImage binary Mac package instead of the {\bf source} one. The binary Mac package works fine
but is tedious to install. It requires \pkg{ImageMagick} to be installed in \code{/usr/local/lib} and \pkg{gtk+-2.0} 
to be installed in \code{/Library/Frameworks/GTK+.framework}.
\item Clash between previous installed libraires (manually installed or installed with Fink). Please check that the 
\pkg{gtk+2-.0} and \pkg{ImageMagick} libraries are located in \code{/opt/local/lib} and not in \code{/usr/local} or \code{/sw/}.
\item The X11 server is not running. Please start the X11 server before installing or running EBImage.
\end{itemize}

EBImage works fine with gtk+-2.0 2.12.9 and ImageMagick 6.3.7 Q16.

\section{Windows}

EBImage requires the following softwares/libraries to be installed:
\begin{itemize}
\item \pkg{gtk+-2.0}
\item \pkg{ImageMagick}
\end{itemize}

The \pkg{gtk+-2.0} bundle can be downloaded from \url{http://ftp.gnome.org/pub/gnome/binaries/win32/gtk+/2.16/gtk+-bundle_2.16.6-20100912_win32.zip} or \url{http://www.gtk.org/download-windows.html} (select the binary GTK+ all-in-one bundle). Please install it, for example in \code{C:\textbackslash gtk}, and add the \code{C: \textbackslash  gtk \textbackslash bin} path to the system environment PATH variable by editing the tab `System/Advanced/Environment' variables of the `My computer' desktop icon properties.\\

\pkg{ImageMagick} can be downloaded from \url{http://www.imagemagick.org/script/binary-releases.php#windows}. 
Select the Q16 DLL version and install it on your computer. During installation, the checkboxes `Update executable search 
path' and `Install developement headers and libraries' must be checked on.\\

EBImage works fine with gtk+-2.0 2.12.9 and ImageMagick 6.3.7 Q16.\\

Please note that on some older Window systems, you may see a runtime error stating that `an application
has made an attempt to load the C runtime library incorrectly'. This is an ImageMagick related issue 
which can be fixed by downloading the Microsoft VC++ 2008 Redistributable Package here:
\url{http://www.microsoft.com/downloads/details.aspx?FamilyID=9b2da534-3e03-4391-8a4d-074b9f2bc1bf&displaylang=en}\\

Gregoire Pau (gregoire.pau@ebi.ac.uk)

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