[Cdd-commits] r660 - cdd/trunk/webtools
CDD Subversion Commit
noreply at alioth.debian.org
Thu Apr 3 22:04:27 UTC 2008
Author: tille
Date: Thu Apr 3 22:04:26 2008
New Revision: 660
Added:
cdd/trunk/webtools/
cdd/trunk/webtools/gexample.py (contents, props changed)
cdd/trunk/webtools/tasks.xhtml
Log:
Some first tests for python-geshi templates to replace stupid and not packaged HTMLTemplate that is used in current web tools
Added: cdd/trunk/webtools/gexample.py
==============================================================================
--- (empty file)
+++ cdd/trunk/webtools/gexample.py Thu Apr 3 22:04:26 2008
@@ -0,0 +1,35 @@
+#!/usr/bin/python
+
+import genshi
+import genshi.template
+
+loader = genshi.template.TemplateLoader('.')
+
+data = dict(
+ projectname = 'Debian Med',
+ projecturl = 'http://debian-med.alioth.debian.org/',
+ logourl = 'http://people.debian.org/~tille/debian-med/logos/med-06.jpg',
+ projectadvertising = """Help us to see Debian used by medical practicioners and researchers!
+ Join us on the
+ <a href="http://alioth.debian.org/projects/debian-med">Alioth page</a>."""
+ ,
+ task = 'Imaging',
+ taskshortdesc = 'Debian-Med imaging packages',
+ tasklongdesc = """This meta package will install Debian packages which might be useful in medical
+image processing.
+<br/>
+It installs several packages supporting DICOM (Digital Imaging and
+Communications in Medicine) which is the de-facto standard for medical
+image management. The standard defines data structures and services for
+the exchange of medical images and related information. The latest release
+has been published in 2004 and consists of 18 parts.
+<br/>
+For more information, you can visit the NEMA homepage <a href="http://medical.nema.org/">http://medical.nema.org/</a>
+or download the current DICOM standard as PDF files from
+<a href="http://www.dclunie.com/dicom-status/status.html">http://www.dclunie.com/dicom-status/status.html</a> . """,
+ )
+
+data['task_lc'] = data['task'].lower()
+template = loader.load('tasks.xhtml')
+
+print template.generate(**data).render('xhtml')
Added: cdd/trunk/webtools/tasks.xhtml
==============================================================================
--- (empty file)
+++ cdd/trunk/webtools/tasks.xhtml Thu Apr 3 22:04:26 2008
@@ -0,0 +1,1533 @@
+<!DOCTYPE html
+ PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
+<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en"
+ xmlns:py="http://genshi.edgewall.org/">
+<head>
+<title>$projectname</title>
+<meta http-equiv="Content-Type" content="application/xhtml+xml; charset=UTF-8"/>
+<link href="imaging.php.xhtml_content/style.css" type="text/css" rel="stylesheet"/>
+</head>
+<body>
+<div style="text-align: center;">
+<a href="$projecturl">
+ <img src="$logourl" alt="$projectname Project"/>
+</a>
+</div>
+<div class="heading" py:if="projectadvertising">
+ <div class="tabBar" style="text-align: center;">$projectadvertising</div>
+</div>
+<table class="columns">
+<tr>
+ <td class="left">
+ <span class="section">summary</span>
+ <div class="section">
+ <div class="sectionTop"/>
+ <div class="row">
+ <strong>$task</strong><br/>
+ <em>$taskshortdesc</em><br/>
+ <p>$tasklongdesc</p>
+ </div>
+ <div class="row">
+ <p>
+ The list to the right includes various software projects which are of some interest to the Debian-Med Project. Currently, only a few of them are available as Debian packages. It is our goal, however, to include all software in Debian-Med which can sensibly add to a high quality Custom Debian Distribution. </p>
+ <p>
+ For a better overview of the project's availability as a Debian package, each head row has a color code according to this scheme: </p>
+ <ul>
+ <li>Green: The project is <a href="#official-debs">available as an official Debian package</a></li>
+ <li>Yellow: The project is <a href="#inofficial-debs">available as an inofficial Debian package</a></li>
+ <li>Red: The project is <a href="#debs-not-available">not (yet) available as a Debian package</a></li>
+ </ul>
+ <p>
+ If you discover a project which looks like a good candidate for Debian-Med to you, or if you have prepared an inofficial Debian package, please do not hesitate to send a description of that project to the <a href="mailto:debian-med at lists.debian.org">Debian-Med mailing list</a> </p>
+ </div>
+ </div>
+ </td>
+ <td class="main">
+ <div class="pageBody">
+ <h1>$projectname $task_lc packages</h1>
+ <h2>
+<a id="official-debs" name="official-debs"/>
+ Official Debian packages
+</h2>
+
+ <table class="project" summary="aeskulap">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="aeskulap" id="aeskulap"/>
+ <strong>Aeskulap</strong><br/>
+ <em>medical image viewer and DICOM network client</em><br/>
+ <a href="http://aeskulap.nongnu.org/">http://aeskulap.nongnu.org</a><br/>
+ Maintainer: <a href="mailto:debian-med-packaging at lists.alioth.debian.org">Debian-Med Packaging Team</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 0.2.2b1</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/science/aeskulap">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/a/aeskulap/aeskulap_0.2.2b1-1_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">Aeskulap is able to load a series of special images stored in the DICOM
+format for review. Additionally it is able to query and fetch DICOM
+images from archive nodes (also called PACS) over the network. Aeskulap
+tries to achieve a full open source replacement for commercially
+available DICOM viewers.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="amide">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="amide" id="amide"/>
+ <strong>Amide</strong><br/>
+ <em>software for Medical Imaging</em><br/>
+ <a href="http://amide.sourceforge.net/">http://amide.sourceforge.net/</a><br/>
+ Maintainer: <a href="mailto:domibel at cs.tu-berlin.de">Dominique Belhachemi</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 0.9.1</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/graphics/amide">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/a/amide/amide_0.9.1-2_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">AMIDE: (Amide's a Medical Imaging Data Examiner)
+AMIDE is a tool for viewing and analyzing medical image data sets.
+It's capabilities include the simultaneous handling of multiple data
+sets imported from a variety of file formats, image fusion, 3D region
+of interest drawing and analysis, volume rendering, and rigid body
+alignments.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="ctn">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="ctn" id="ctn"/>
+ <strong>Ctn</strong><br/>
+ <em>Central Test Node, a DICOM implementation for medical imaging</em><br/>
+ <a href="#">Homepage not available</a><br/>
+ Maintainer: <a href="mailto:thijs at debian.org">Thijs Kinkhorst</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 3.0.6</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/graphics/ctn">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/c/ctn/ctn_3.0.6-12_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">DICOM is the standard for image storage, annotation, and networking.
+It is used widely for medical imaging. The Central Test Node software (CTN)
+provides an implementation of this standard.
+<br/>
+This package includes the binary and run-time configuration files for CTN.
+<br/>
+Homepage: <a href="http://www.erl.wustl.edu/DICOM/ctn.html">http://www.erl.wustl.edu/DICOM/ctn.html</a>
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="ctsim">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="ctsim" id="ctsim"/>
+ <strong>Ctsim</strong><br/>
+ <em>Computed tomography simulator</em><br/>
+ <a href="#">Homepage not available</a><br/>
+ Maintainer: <a href="mailto:kmr at debian.org">Kevin M. Rosenberg</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 4.5.5</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/science/ctsim">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/c/ctsim/ctsim_4.5.5-1_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">CTSim provides an interactive computed tomography simulator. Computed
+tomography is the technique of estimating the interior of an object
+by measuring x-ray absorption through that object.
+<br/>
+CTSim has both command-line tools and a graphical user interface.
+CTSim has very educational trace modes for viewing the data
+collection simulation as well as the reconstruction.
+<br/>
+Home page: <a href="http://www.ctsim.org/">http://www.ctsim.org/</a>
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="dcmtk">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="dcmtk" id="dcmtk"/>
+ <strong>Dcmtk</strong><br/>
+ <em>The OFFIS DICOM toolkit command line utilities</em><br/>
+ <a href="#">Homepage not available</a><br/>
+ Maintainer: <a href="mailto:jsa at debian.org">Juergen Salk</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 3.5.4</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/science/dcmtk">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/d/dcmtk/dcmtk_3.5.4-3_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">DCMTK includes a collection of libraries and applications for examining,
+constructing and converting DICOM image files, handling offline media,
+sending and receiving images over a network connection, as well as
+demonstrative image storage and worklist servers.
+<br/>
+This package contains the DCMTK utility applications.
+<br/>
+Note: This version was compiled with libssl support.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="dicomnifti">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="dicomnifti" id="dicomnifti"/>
+ <strong>Dicomnifti</strong><br/>
+ <em>converts DICOM files into the NIfTI format</em><br/>
+ <a href="http://cbi.nyu.edu/software/dinifti.php">http://cbi.nyu.edu/software/dinifti.php</a><br/>
+ Maintainer: <a href="mailto:michael.hanke at gmail.com">Michael Hanke</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 2.28.11</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/science/dicomnifti">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/d/dicomnifti/dicomnifti_2.28.11-1_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">The dinifti program converts MRI images stored in DICOM format to NIfTI
+format. The NIfTI format is thought to be the new standard image format for
+medical imaging and can be used with for example with FSL, AFNI, SPM, Caret
+or Freesurfer.
+<br/>
+dinifti converts single files, but also supports fully automatic batch
+conversions of complete dicomdirs. Additionally, converted NIfTI files can
+be properly named, using image series information from the DICOM files.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="dicomnifti">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="dicomnifti" id="dicomnifti"/>
+ <strong>Dicomnifti</strong><br/>
+ <em>converts DICOM files into the NIfTI format</em><br/>
+ <a href="http://cbi.nyu.edu/software/dinifti.php">http://cbi.nyu.edu/software/dinifti.php</a><br/>
+ Maintainer: <a href="mailto:michael.hanke at gmail.com">Michael Hanke</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 2.28.11</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/science/dicomnifti">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/d/dicomnifti/dicomnifti_2.28.11-1_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">The dinifti program converts MRI images stored in DICOM format to NIfTI
+format. The NIfTI format is thought to be the new standard image format for
+medical imaging and can be used with for example with FSL, AFNI, SPM, Caret
+or Freesurfer.
+<br/>
+dinifti converts single files, but also supports fully automatic batch
+conversions of complete dicomdirs. Additionally, converted NIfTI files can
+be properly named, using image series information from the DICOM files.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="fsl">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="fsl" id="fsl"/>
+ <strong>Fsl</strong><br/>
+ <em>analysis tools for FMRI, MRI and DTI brain imaging</em><br/>
+ <a href="http://www.fmrib.ox.ac.uk/fsl/">http://www.fmrib.ox.ac.uk/fsl/</a><br/>
+ Maintainer: <a href="mailto:michael.hanke at gmail.com">Michael Hanke</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 4.0.3</em><br/>
+ <em>License: non-free</em><br/>
+ <a href="http://packages.debian.org/unstable/non-free/science/fsl">Official Debian package</a> — <a href="http://ftp.debian.org/pool/non-free/f/fsl/fsl_4.0.3-2_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">FSL is a comprehensive library of image analysis and statistical tools
+for FMRI, MRI and DTI brain imaging data.
+<br/>
+FSL provides an easy to use GUI.
+<br/>
+FSL interoperates well with other brain imaging related software. This includes
+Caret, FreeSurfer (cortical flattening and modelling).
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="fslview">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="fslview" id="fslview"/>
+ <strong>Fslview</strong><br/>
+ <em>viewer for (f)MRI and DTI data</em><br/>
+ <a href="http://www.fmrib.ox.ac.uk/fsl/fslview">http://www.fmrib.ox.ac.uk/fsl/fslview</a><br/>
+ Maintainer: <a href="mailto:michael.hanke at gmail.com">Michael Hanke</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 3.0+4.0.2</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/science/fslview">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/f/fslview/fslview_3.0+4.0.2-3_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">This package provides a viewer for 3d and 4d MRI data as well as DTI images.
+FSLView is able to display ANALYZE and NIFTI files. The viewer supports
+multiple 2d viewing modes (orthogonal, lightbox or single slices), but also
+3d volume rendering. Additionally FSLView is able to visualize timeseries and
+can overlay metrical and stereotaxic atlas data.
+<br/>
+FSLView is part of FSL.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="gwyddion">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="gwyddion" id="gwyddion"/>
+ <strong>Gwyddion</strong><br/>
+ <em>Scanning Probe Microscopy visualization and analysis</em><br/>
+ <a href="http://gwyddion.net/">http://gwyddion.net/</a><br/>
+ Maintainer: <a href="mailto:jan at beathovn.de">Jan Beyer</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 2.9</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/science/gwyddion">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/g/gwyddion/gwyddion_2.9-3_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">Gwyddion is a modular program for Scanning Probe Microscopy (SPM) data
+visualization and analysis. It is primarily intended for analysis of height
+field data obtained by microscopy techniques like
+Atomic Force Microscopy (AFM),
+Magnetic Force Microscopy (MFM),
+Scanning Tunneling Microscopy (STM),
+Near-field Scanning Optical Microscopy (SNOM or NSOM)
+and others. However, it can be used for arbitrary height field and
+image analysis.
+<br/>
+This package contains the main application and its modules.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="imagej">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="imagej" id="imagej"/>
+ <strong>Imagej</strong><br/>
+ <em>Image processing program inspired by NIH Image for the Macintosh</em><br/>
+ <a href="#">Homepage not available</a><br/>
+ Maintainer: <a href="mailto:paolo.ariano at unito.it">Paolo Ariano</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 1.39q</em><br/>
+ <em>License: DFSG free, but needs non-free components</em><br/>
+ <a href="http://packages.debian.org/unstable/contrib/science/imagej">Official Debian package</a> — <a href="http://ftp.debian.org/pool/contrib/i/imagej/imagej_1.39q-2_all.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">It can display, edit, analyze, process, save and print 8-bit, 16-bit and
+32-bit images. It can read many image formats including TIFF, GIF, JPEG,
+BMP, DICOM, FITS and "raw". It supports "stacks", a series of images that
+share a single window.
+<br/>
+It can calculate area and pixel value statistics of user-defined
+selections. It can measure distances and angles. It can create density
+histograms and line profile plots. It supports standard image processing
+functions such as contrast manipulation, sharpening, smoothing, edge
+detection and median filtering.
+<br/>
+Spatial calibration is available to provide real world dimensional
+measurements in units such as millimeters. Density or gray scale
+calibration is also available.
+<br/>
+ImageJ is developed by Wayne Rasband (wayne at codon.nih.gov), is at the
+Research Services Branch, National Institute of Mental Health, Bethesda,
+Maryland, USA.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="imagemagick">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="imagemagick" id="imagemagick"/>
+ <strong>Imagemagick</strong><br/>
+ <em>image manipulation programs</em><br/>
+ <a href="http://www.imagemagick.org/">http://www.imagemagick.org/</a><br/>
+ Maintainer: <a href="mailto:luciano at debian.org">Luciano Bello</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 7:6.3.7.9.dfsg1</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/graphics/imagemagick">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/i/imagemagick/imagemagick_6.3.7.9.dfsg1-2+b1_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">Imagemagick is a set of programs to manipulate various image formats
+(JPEG, TIFF, PhotoCD, PBM, XPM, etc...). All manipulations can
+be achieved through shell commands as well as through an X11 graphical
+interface (display).
+<br/>
+Possible effects: colormap manipulation, channel operations, thumbnail
+creation, image annotation, limited drawing, image distortion, etc...
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="imview">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="imview" id="imview"/>
+ <strong>Imview</strong><br/>
+ <em>Image viewing and analysis application</em><br/>
+ <a href="http://www.cmis.csiro.au/Hugues.Talbot/imview/">http://www.cmis.csiro.au/Hugues.Talbot/imview/</a><br/>
+ Maintainer: <a href="mailto:tpikonen at gmail.com">Teemu Ikonen</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 1.1.9c</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/science/imview">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/i/imview/imview_1.1.9c-1_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">Imview is an application which
+<br/>
+<pre>
+ * Displays a large number of image formats.
+ * Displays 2D or 3D (as slices) images with a very good zoom and pan
+ feature.
+ * Works with multi-spectral, time series or multi-page documents (e.g.:
+ Satellite images, TIFF stacks, animated GIFs and heterogeneous
+ multi-component files).
+ * Displays all pixel types (1-bit to 64-bit data, integer or floating
+ point).
+ * Arbitrary 1-D profile of 2-D images (or of 2-D slices of 3-D images) can
+ be displayed.
+ * Has support for arbitrary colourmaps for all pixel types (i.e.: false
+ colour display).
+ * Has standard image manipulation facilities (brightness/contrast, gamma,
+ zoom, crop, rotation, etc).
+ * Can be controlled remotely via sockets and text commands (for easy
+ integration into various image analysis systems).
+ * Images can be uploaded into Imview via sockets or shared memory.
+ * And much more!
+</pre>
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="libvolpack1">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="libvolpack1" id="libvolpack1"/>
+ <strong>Libvolpack1</strong><br/>
+ <em>fast volume rendering library</em><br/>
+ <a href="http://graphics.stanford.edu/software/volpack/">http://graphics.stanford.edu/software/volpack/</a><br/>
+ Maintainer: <a href="mailto:debian-med-packaging at lists.alioth.debian.org">Debian-Med Packaging Team</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 1.0b3</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/libs/libvolpack1">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/v/volpack/libvolpack1_1.0b3-2_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">VolPack is a software library for fast, high-quality volume rendering with
+this features:
+<pre>
+ * Renders data sampled on a regular, three-dimensional grid.
+ * Supports user-specified transfer functions for both opacity and color.
+ * Provides a shading model with directional light sources, multiple material
+ types with different reflective properties, depth cueing, and shadows.
+ * Produces color (24 bits/pixel) or grayscale (8 bits/pixel) renderings,
+ with or without an alpha channel.
+ * Supports arbitrary affine view transformations.
+ * Supports a flexible data format that allows an arbitrary C structure to be
+ associated with each voxel.
+</pre>
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="medcon">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="medcon" id="medcon"/>
+ <strong>Medcon</strong><br/>
+ <em>Medical Image (DICOM, ECAT, ...) conversion tool</em><br/>
+ <a href="http://xmedcon.sourceforge.net/">http://xmedcon.sourceforge.net/</a><br/>
+ Maintainer: <a href="mailto:rudi at debian.org">Roland Marcus Rutschmann</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 0.10.4</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/graphics/medcon">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/x/xmedcon/medcon_0.10.4-1_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">This project stands for Medical Image Conversion. Released under the
+(L)GPL, it comes with the full C-source code of the library, a
+flexible command line utility and a neat graphical front-end using
+the GTK+ toolkit. The currently supported formats are: Acr/Nema 2.0,
+Analyze (SPM), DICOM 3.0, InterFile 3.3 and PNG.
+<br/>
+The program also allows to read unsupported files without
+compression, to print pixel values or to extract/reorder specified
+images. It is possible to retrieve the raw binary/ascii image arrays
+or to write PNG for desktop applications.
+<br/>
+This is the command line tool for batch processing.
+<br/>
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="minc-tools">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="minc-tools" id="minc-tools"/>
+ <strong>Minc-tools</strong><br/>
+ <em>MNI medical image format tools</em><br/>
+ <a href="http://www.bic.mni.mcgill.ca/software/">http://www.bic.mni.mcgill.ca/software/</a><br/>
+ Maintainer: <a href="mailto:debian-med-packaging at lists.alioth.debian.org">Debian-Med Packaging Team</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 2.0.14</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/science/minc-tools">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/m/minc/minc-tools_2.0.14-2+b2_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">This package contains tools to manipulate MINC files.
+<br/>
+The Minc file format is a highly flexible medical image file format
+built on top of the NetCDF generalized data format. The format is
+simple, self-describing, extensible, portable and N-dimensional, with
+programming interfaces for both low-level data access and high-level
+volume manipulation. On top of the libraries is a suite of generic
+image-file manipulation tools. The format, libraries and tools are
+designed for use in a medical-imaging research environment: they are
+simple and powerful and make no attempt to provide a pretty interface
+to users.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="nifti-bin">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="nifti-bin" id="nifti-bin"/>
+ <strong>Nifti-bin</strong><br/>
+ <em>tools shipped with the NIfTI library</em><br/>
+ <a href="http://niftilib.sourceforge.net/">http://niftilib.sourceforge.net</a><br/>
+ Maintainer: <a href="mailto:michael.hanke at gmail.com">Michael Hanke</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 1.0.0</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/utils/nifti-bin">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/n/nifticlib/nifti-bin_1.0.0-1_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">Niftilib is a set of i/o libraries for reading and writing files in the
+NIfTI-1 data format. NIfTI-1 is a binary file format for storing medical
+image data, e.g. magnetic resonance image (MRI) and functional MRI (fMRI)
+brain images.
+<br/>
+This package provides the tools that are shipped with the library
+(nifti_tool, nifti_stats and nifti1_test). Additionally it contains some
+helper scripts for image file handling as well as a TCL wrapper for these
+scripts.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="pngquant">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="pngquant" id="pngquant"/>
+ <strong>Pngquant</strong><br/>
+ <em>PNG (Portable Network Graphics) image optimising utility</em><br/>
+ <a href="http://www.libpng.org/pub/png/apps/pngquant.html">http://www.libpng.org/pub/png/apps/pngquant.html</a><br/>
+ Maintainer: <a href="mailto:naoliv at debian.org">Nelson A. de Oliveira</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 1.0</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/graphics/pngquant">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/p/pngquant/pngquant_1.0-4_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">pngquant is a command-line conversion utility to quantize and dither truecolor
+PNG images, especially those with a full alpha channel, down to 8-bit (or
+smaller) RGBA-palette PNGs. Such images are usually two to four times smaller
+than the full 32-bit versions, and partial transparency is preserved quite
+nicely. This makes pngquant especially useful both for Web sites and for
+PlayStation 2 development, where one of the texture formats is
+RGBA-palette-based (though not PNG-compressed).
+This is the same technique used for many of the images on the Miscellaneous
+Transparent PNGs page (<a href="http://www.libpng.org/pub/png/pngs-img.html">http://www.libpng.org/pub/png/pngs-img.html</a>), and
+the results are often indistinguishable from the original, truecolor PNG
+images.
+<br/>
+Optimizers (like pngcrush and optipng) optimize the compression, usually
+losslessly, while pngquant quantizes colors down to 256 (or fewer) distinct
+RGBA combinations, which is lossy.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="python-nifti">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="python-nifti" id="python-nifti"/>
+ <strong>Python-nifti</strong><br/>
+ <em>Python interface to the NIfTI I/O libraries</em><br/>
+ <a href="http://niftilib.sourceforge.net/pynifti/">http://niftilib.sourceforge.net/pynifti/</a><br/>
+ Maintainer: <a href="mailto:michael.hanke at gmail.com">Michael Hanke</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 0.20070930.1</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/python/python-nifti">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/p/pynifti/python-nifti_0.20070930.1-2_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">Using PyNIfTI one can easily read and write NIfTI and ANALYZE images from
+within Python. The NiftiImage class provides Python-style access to the full
+header information. Image data is made available via NumPy arrays.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="xmedcon">
+ <tbody>
+ <tr class="deb-official">
+ <td class="project-name">
+ <a name="xmedcon" id="xmedcon"/>
+ <strong>Xmedcon</strong><br/>
+ <em>Medical Image (DICOM, ECAT, ...) conversion tool</em><br/>
+ <a href="http://xmedcon.sourceforge.net/">http://xmedcon.sourceforge.net/</a><br/>
+ Maintainer: <a href="mailto:rudi at debian.org">Roland Marcus Rutschmann</a>
+ </td>
+ <td class="project-license">
+ <em>Version: 0.10.4</em><br/>
+ <em>License: DFSG free</em><br/>
+ <a href="http://packages.debian.org/unstable/graphics/xmedcon">Official Debian package</a> — <a href="http://ftp.debian.org/pool/main/x/xmedcon/xmedcon_0.10.4-1_i386.deb"><img src="imaging.php.xhtml_content/deb-icon.png"/></a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">This project stands for Medical Image Conversion. Released under the
+(L)GPL, it comes with the full C-source code of the library, a
+flexible command line utility and a neat graphical front-end using
+the GTK+ toolkit. The currently supported formats are: Acr/Nema 2.0,
+Analyze (SPM), DICOM 3.0, InterFile 3.3 and PNG.
+<br/>
+The program also allows to read unsupported files without
+compression, to print pixel values or to extract/reorder specified
+images. It is possible to retrieve the raw binary/ascii image arrays
+or to write PNG for desktop applications.
+<br/>
+This is the program version for X based on GTK+. Processes only one
+file at a time.
+<br/>
+</td>
+ </tr>
+ </tbody>
+ </table>
+ <h2>
+<a id="unofficial-debs" name="unofficial-debs"/>
+ Experimental or unofficial Debian packages, projects with packaging stuff in SVN
+</h2>
+ <table class="project" summary="afni">
+ <tbody>
+ <tr class="deb-inofficial">
+ <td class="project-name">
+ <a name="afni" id="afni"/>
+ <strong>Afni</strong> — <a href="http://bugs.debian.org/409849">wnpp</a><br/>
+ <em>environment for processing and displaying functional MRI data</em><br/>
+ <a href="http://afni.nimh.nih.gov/">http://afni.nimh.nih.gov/</a><br/>
+ Responsible: <a href="mailto:michael.hanke at gmail.com">Michael Hanke</a>
+ </td>
+ <td class="project-license">
+ <em>Version: N/A</em><br/>
+ <em>License: GPL</em><br/>
+ <a href="http://sourceforge.net/project/showfiles.php?group_id=61662%26package_id=60298">Unofficial Debian package</a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">AFNI is an environment for processing and displaying functional
+MRI data. It provides a complete analysis toolchain, including
+3D cortical surface models, and mapping of volumetric data (SUMA).
+In addition to its own format AFNI understands the NIfTI format and is
+therefore easily usable in combination with FSL and Freesurfer.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="caret">
+ <tbody>
+ <tr class="deb-inofficial">
+ <td class="project-name">
+ <a name="caret" id="caret"/>
+ <strong>Caret</strong> — <a href="http://bugs.debian.org/421703">wnpp</a><br/>
+ <em>Computerized Anatomical Reconstruction and Editing</em><br/>
+ <a href="http://brainmap.wustl.edu/caret/">http://brainmap.wustl.edu/caret/</a><br/>
+ Responsible: <a href="mailto:michael.hanke at gmail.com">Michael Hanke</a>
+ </td>
+ <td class="project-license">
+ <em>Version: N/A</em><br/>
+ <em>License: GPL</em><br/>
+ <a href="http://apsy.gse.uni-magdeburg.de/debian/pool/main/c/caret/">Unofficial Debian package</a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">This software allows for viewing and manipulating surface
+reconstructions of the cerebral and cerebellar cortex, viewing
+volumes and for displaying experimental data on the surfaces and
+volumes.
+<br/>
+Caret can download and use stereotaxic atlases (human, monkey, mouse
+and rat) from an open online database.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="gdcm">
+ <tbody>
+ <tr class="deb-inofficial">
+ <td class="project-name">
+ <a name="gdcm" id="gdcm"/>
+ <strong>Gdcm</strong><br/>
+ <em>Grass Root DICOM</em><br/>
+ <a href="http://sourceforge.net/project/showfiles.php?group_id=137895">http://sourceforge.net/project/showfiles.php?group_id=137895</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>Version: N/A</em><br/>
+ <em>License: BSD</em><br/>
+ <a href="http://sourceforge.net/project/showfiles.php?group_id=137895%26package_id=197047">Unofficial Debian package</a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">GDCM is yet another C++ library dedicated to reading/parsing and writing
+DICOM medical files. GDCM stands as a short for "Grass roots DiCoM".
+Supports currently RAW,JPEG,J2K,JPEG lossless,RLE, deflate(zlib) but
+not JPEG-LS,MPEG for now.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="mni-autoreg">
+ <tbody>
+ <tr class="deb-inofficial">
+ <td class="project-name">
+ <a name="mni-autoreg" id="mni-autoreg"/>
+ <strong>Mni-autoreg</strong><br/>
+ <em>MNI average brain (305 MRI) stereotaxic registration model</em><br/>
+ <a href="http://www.bic.mni.mcgill.ca/software/mni_autoreg/">http://www.bic.mni.mcgill.ca/software/mni_autoreg/</a><br/>
+ Responsible: <a href="mailto:michael.hanke at gmail.com">Michael Hanke</a>
+ </td>
+ <td class="project-license">
+ <em>Version: N/A</em><br/>
+ <em>License: no-free, but GPLed parts</em><br/>
+ <a href="http://apsy.gse.uni-magdeburg.de/debian/pool/contrib/m/mni-autoreg-model/">Unofficial Debian package</a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">This package provides a version of the MNI Average Brain (an average of 305
+T1-weighted MRI scans, linearly transformed to Talairach space) specially
+adapted for use with the MNI Linear Registration Package.
+<br/>
+<pre>
+ * average_305.mnc - a version of the average MRI that covers the whole brain
+ (unlike the original Talairach atlas), sampled with 1mm cubic voxels
+ * average_305_mask.mnc - a mask of the brain in average_305.mnc
+ * average_305_headmask.mnc - another mask, required for nonlinear mode
+<br/>
+</pre>
+Remark: Michael Hanke agreed to take over his stuff from mentors
+<a href="http://mentors.debian.net/cgi-bin/sponsor-pkglist?action=details;package=mni-autoreg">http://mentors.debian.net/cgi-bin/sponsor-pkglist?action=details;package=mni-autoreg</a>
+and
+<a href="http://mentors.debian.net/cgi-bin/sponsor-pkglist?action=details;package=mni-autoreg-model">http://mentors.debian.net/cgi-bin/sponsor-pkglist?action=details;package=mni-autoreg-model</a>
+to Debian-Med svn and start group maintenance.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="mni-n3">
+ <tbody>
+ <tr class="deb-inofficial">
+ <td class="project-name">
+ <a name="mni-n3" id="mni-n3"/>
+ <strong>Mni-n3</strong><br/>
+ <em>MNI Non-parametric Non-uniformity Normalization</em><br/>
+ <a href="http://www.bic.mni.mcgill.ca/software/N3/">http://www.bic.mni.mcgill.ca/software/N3/</a><br/>
+ Responsible: <a href="mailto:michael.hanke at gmail.com">Michael Hanke</a>
+ </td>
+ <td class="project-license">
+ <em>Version: N/A</em><br/>
+ <em>License: BSDish</em><br/>
+ <a href="http://mentors.debian.net/debian/pool/main/m/mni-n3/">Unofficial Debian package</a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">MNI Non-parametric Non-uniformity Normalization (N3). This package provides
+the 'nu_correct' tool for unsupervised correction of radio frequency (RF)
+field inhomogenities in MR volumes. Two packages are provided:
+<pre>
+ * mni-n3 - provides 'nu_correct'
+ * libebtks-dev - MNI support library with numerical types and algorithms
+<br/>
+</pre>
+Remark: Michael Hanke agreed to take over his stuff from mentors
+<a href="http://mentors.debian.net/cgi-bin/sponsor-pkglist?action=details;package=mni-n3">http://mentors.debian.net/cgi-bin/sponsor-pkglist?action=details;package=mni-n3</a>
+to Debian-Med svn and start group maintenance.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="opendicom.net">
+ <tbody>
+ <tr class="deb-inofficial">
+ <td class="project-name">
+ <a name="opendicom.net" id="opendicom.net"/>
+ <strong>Opendicom.net</strong><br/>
+ <em>API to DICOM in C# for Mono</em><br/>
+ <a href="http://opendicom.sourceforge.net/">http://opendicom.sourceforge.net/</a><br/>
+ Responsible: <a href="mailto:agnandt at users.sourceforge.net">Albert Gnandt</a>
+ </td>
+ <td class="project-license">
+ <em>Version: N/A</em><br/>
+ <em>License: LGPL</em><br/>
+ <a href="http://ubuntu.mi.hs-heilbronn.de/other/opendicom">Unofficial Debian package</a>
+ </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">The openDICOM.NET project implements a new approach towards DICOM
+(Digital Imaging and Communications in Medicine) libraries. DICOM is
+a worldwide standard in Medical IT and is provided by the National
+Electrical Manufacturers Assocation (NEMA). This standard specifies
+the way medical images and meta data like study or patient related
+data is stored and communicated over different digital medias. Thus,
+DICOM is a binary protocol and data format.
+<br/>
+The openDICOM# Class Libary, main part of the openDICOM.NET project,
+provides an API to DICOM in C# for Mono and the .NET Framework. It is
+a completely new implementation of DICOM. In contrast to other
+similar libraries the intention of this implementation is to provide
+a clean classification with support of unidirectional DICOM data
+streaming. Another implemented goal is the support of DICOM as
+XML. This is not standard conform but very use- and powerful within
+software development, storage and manipulation. Currently, full read
+support of DICOM output stream and full write support to XML is
+supposed to be provided. The entire DICOM content can be accessed as
+sequence or as tree of class instances. Latter is the default
+representation of DICOM content by the library.
+<br/>
+The openDICOM.NET Utils are a collection of console tools for working
+with the needed data dictionaries in different data formats (binary
+and textual), query of ACR-NEMA (prior DICOM standard) and DICOM
+files and transcoding them into image formats like JPEG and XML
+files. These utils are written in C# for Mono and the .NET Framework
+and are using the openDICOM# API for processing.
+<br/>
+The openDICOM.NET Navigator recapitulates the openDICOM.NET Utils in
+form of a GTK# GUI. It provides different views with focus on DICOM
+data sets and visualization. Connectivity to GIMP is also given for
+single image processing purpose as well as the possibility to run
+through multi-frame images like a movie.
+<br/>
+The openDICOM.NET Beagle Filter Plugin increases the usability of
+ACR-NEMA and DICOM query within your desktop. It makes DICOM content
+overall indexable for retrieval. The Beagle search engine relies on
+Mono/.NET and works in the background of your system, but is able to
+detect content changes in realtime (depending on your configuration).
+<br/>
+All GUI applications focus the popular GNOME desktop, but are 100%
+platform independent by relying on Mono.
+</td>
+ </tr>
+ </tbody>
+ </table>
+ <h2>
+<a id="debs-not-available" name="debs-not-available"/>
+ Debian packages not available
+</h2>
+ <table class="project" summary="bioimagesuite">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="bioimagesuite" id="bioimagesuite"/>
+ <strong>Bioimagesuite</strong><br/>
+ <em>integrated image analysis software suite</em><br/>
+ <a href="http://www.bioimagesuite.org/">http://www.bioimagesuite.org/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: GPL</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">BioImage Suite has extensive capabilities for both neuro/cardiac
+and abdominal image analysis and state of the art visualization.
+Many packages are available that are highly extensible, and provide
+functionality for image visualization and registration, surface
+editing, cardiac 4D multi-slice editing, diffusion tensor image
+processing, mouse segmentation and registration, and much more. It
+can be intergrated with other biomedical image processing software,
+such as FSL and SPM. This site provides information, downloads,
+documentation, and other resources for users of the software.
+<br/>
+BioImage Suite was developed at Yale University and has been
+extensively used at different labs at Yale since 2004.
+<br/>
+There is a forum at BioImage Suite site for discussion of
+compiling it from source and packaging issues at
+<a href="http://research.yale.edu/bioimagesuite/forum/index.php?board=12.0">http://research.yale.edu/bioimagesuite/forum/index.php?board=12.0</a>
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="blox">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="blox" id="blox"/>
+ <strong>Blox</strong><br/>
+ <em>medical imaging and visualization program</em><br/>
+ <a href="http://sourceforge.net/projects/blox/">http://sourceforge.net/projects/blox/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: GPL</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">The purpose of the project is to develop a quantitative medical
+imaging and visualization program for use on brain MR, DTI and MRS
+data. It is a joint project of the Kennedy Krieger Institute and the
+Johns Hopkins University, Psychiatric Neuroimaging Lab
+(<a href="http://pni.med.jhu.edu/methods/morph.htm">http://pni.med.jhu.edu/methods/morph.htm</a>).
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="brainvisa">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="brainvisa" id="brainvisa"/>
+ <strong>Brainvisa</strong><br/>
+ <em>image processing factory for MR images</em><br/>
+ <a href="http://brainvisa.info/">http://brainvisa.info/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: Free? (CeCill License)</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">BrainVISA is a software, which embodies an image processing
+factory. A simple control panel allows the user to trigger some
+sequences of treatments on series of images. These treatments are
+performed by calls to command lines provided by different
+laboratories. These command lines, hence, are the building blocks on
+which are built the assembly lines of the factory. BrainVISA is
+distributed with a toolbox of building blocks dedicated to the
+segmentation of T1-weighted MR images. The product of the main
+assembly line made up from this toolbox is the following: grey/white
+classification for Voxel Based Morphometry, Meshes of each hemisphere
+surface for visualization purpose, Spherical meshes of each
+hemisphere white matter surface, a graph of the cortical folds, a
+labeling of the cortical folds according to a nomenclature of the
+main sulci.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="conquest-dicom-server">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="conquest-dicom-server" id="conquest-dicom-server"/>
+ <strong>Conquest-dicom-server</strong><br/>
+ <em>full featured DICOM server</em><br/>
+ <a href="http://www.xs4all.nl/~ingenium/dicom.html">http://www.xs4all.nl/~ingenium/dicom.html</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: Public domain</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">A full featured DICOM server that has been developed based on and
+heavily extending the public domain UCDMC DICOM code.
+Some possible applications of the Conquest DICOM software are:
+<pre>
+ * DICOM training and testing
+ * Demonstration and research image archives
+ * Image format conversion from a scanner with DICOM network access
+ * DICOM image viewing and slide making
+ * DICOM image selection, (limited) editing, and splitting and merging of series
+ * Advanced automatic image forwarding and (de)compression
+ * DICOM caching and archive merging
+</pre>
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="dcm4che">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="dcm4che" id="dcm4che"/>
+ <strong>Dcm4che</strong><br/>
+ <em>collection of open source applications and utilities healthcare enterprise</em><br/>
+ <a href="http://www.dcm4che.org/">http://www.dcm4che.org/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: LGPL, MPL, Apache, other (also non-free)</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">At the core of the dcm4che project is a robust implementation of the
+DICOM standard. The dcm4che-1.x DICOM toolkit is used in many production
+applications across the world, while the current (2.x) version of the
+toolkit has been re-architected for high performance and flexibility.
+<br/>
+Also contained within the dcm4che project is dcm4chee (the extra 'e'
+stands for 'enterprise'). dcm4chee is an Image Manager/Image Archive
+(according to IHE). The application contains the DICOM, HL7 services
+and interfaces that are required to provide storage, retrieval, and
+workflow to a healthcare environment. dcm4chee is pre-packaged and
+deployed within the JBoss application server. By taking advantage of
+many JBoss features (JMS, EJB, Servlet Engine, etc.), and assuming the
+role of several IHE actors for the sake of interoperability, the
+application provides many robust and scalable services.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="dicom3tools">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="dicom3tools" id="dicom3tools"/>
+ <strong>Dicom3tools</strong><br/>
+ <em>handling offline files of DICOM 3 attributes</em><br/>
+ <a href="http://www.dclunie.com/dicom3tools.html">http://www.dclunie.com/dicom3tools.html</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: BSD</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">Tools and libraries for handling offline files of DICOM 3 attributes,
+and conversion of proprietary formats to DICOM 3. Can handle older
+ACR/NEMA format data, and some proprietary versions of that such as
+SPI.
+<br/>
+It has extremely limited X display capability and no networking
+code that is why this is not a complete DICOM implementation.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="dicom4j">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="dicom4j" id="dicom4j"/>
+ <strong>Dicom4j</strong><br/>
+ <em>Java framework for Dicom</em><br/>
+ <a href="http://dicom4j.sourceforge.net/">http://dicom4j.sourceforge.net/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: GPL</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">Java framework for Dicom
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="dicomscope">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="dicomscope" id="dicomscope"/>
+ <strong>Dicomscope</strong><br/>
+ <em>DICOMscope is a free DICOM viewer which can display uncompressed,</em><br/>
+ <a href="http://dicom.offis.de/dscope.php.en">http://dicom.offis.de/dscope.php.en</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: Has to be clarified</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">monochrome DICOM images from all modalities and which supports
+monitor calibration according to DICOM part 14 as well as
+presentation states. DICOMscope offers a print client (DICOM Basic
+Grayscale Print Management) which also implements the optional
+Presentation LUT SOP Class. The development of this prototype was
+commissioned by the "Committee for the Advancement of DICOM" and
+demonstrated at the European Congress of Radiology ECR 1999. An
+enhanced version was developed for the "DICOM Display Consistency
+Demonstration" at RSNA InfoRAD 1999. The current release 3.5.1 has
+been demonstrated at ECR 2001 and contains numerous extensions,
+including a print server, support for encrypted DICOM communication,
+digital signatures and structured reporting.
+<br/>
+DICOMscope is not meant as a competition for commercial DICOM
+viewers. The application is rather a feasibility study for DICOM
+presentation states. The program is not appropriate to be used in a
+clinical environment, e.g. for reporting.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="drjekyll">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="drjekyll" id="drjekyll"/>
+ <strong>Drjekyll</strong><br/>
+ <em>interactive voxel editor for viewing and editing three-dimensional images</em><br/>
+ <a href="http://drjekyll.sourceforge.net/">http://drjekyll.sourceforge.net</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: GPL</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">It is specifically aimed at postprocessing of segmented datasets,
+but offers some functionality for raw data as well.
+Voxel elements (=voxels) and pixel ("picture element") are viewed
+as data sets and can be processed by this program as kind of
+a final polishing process.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="ecg2png">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="ecg2png" id="ecg2png"/>
+ <strong>Ecg2png</strong><br/>
+ <em>convert scanned electrocardiograms into PNG format</em><br/>
+ <a href="#">#</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: GPL</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">This program is designed to convert scanned 12-lead
+electrocardiograms into PNG format and a web-friendly image size. It
+assumes that the electrocardiogram (ECG) is printed with a black line
+on white paper with a red grid.
+<br/>
+The problems this program is designed to solve are (1) an ECG scanned
+at relatively high resolution (300 to 600 dots per inch) imposes a
+substantial load on the web browser because it contains about 6
+million pixels which may require 18 to 24 MB of RAM to store for
+display. Also, (2) typical scanners convert a clean paper ECG into a
+multitude of colors, include green and blue. The resulting file
+cannot be compressed efficiently because it does not contain as much
+redundancy, and thus takes more time to transmit over low-speed
+network connections.
+<br/>
+Remark: The homepage of this project that used to be at
+<a href="http://www.cardiothink.com/downloads/ecg2png/">http://www.cardiothink.com/downloads/ecg2png/</a> vanished but the source
+can be downloaded fro instance from
+<a href="http://www.freshports.org/graphics/ecg2png/">http://www.freshports.org/graphics/ecg2png/</a> .
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="kradview">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="kradview" id="kradview"/>
+ <strong>Kradview</strong><br/>
+ <em>the free DICOM viewer for Linux</em><br/>
+ <a href="http://www.orcero.org/irbis/kradview/">http://www.orcero.org/irbis/kradview/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: GPLv3</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">Kradview is a GPLed viewer of images obtained for some different
+sources: X-ray, NMR and DICOM-compatible imaging devices that runs on
+free operating systems. Its aim is a easy to use DICOM viewer with
+instant rendering of images, no matter the size and the zoom of the
+DICOM image. It covers the "let's see the the X-ray image" need of
+the medical professional.
+<br/>
+Kradview as been developed in C and C++ using KDE libraries. The
+parsing, rendering, and processing routines has been developed in C,
+and the graphical interface has been developed in C++ and includes
+the former routines with "extern C" for fast use.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="libvista2">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="libvista2" id="libvista2"/>
+ <strong>Libvista2</strong><br/>
+ <em>software environment for computer vision research</em><br/>
+ <a href="http://mia.sourceforge.net/">http://mia.sourceforge.net/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: GPL</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">Vista is a software environment for computer vision research. It is
+designed to support not only images, but also edge sets, camera models,
+and more complex data structures. Vista includes libraries of common
+computer vision and image processing algorithms. It is written in
+ANSI C, for UNIX platforms running X Windows, and it is freely available.
+The original development was done at University of British Columbia
+(<a href="http://www.cs.ubc.ca/nest/lci/vista/vista.html">http://www.cs.ubc.ca/nest/lci/vista/vista.html</a>).
+<br/>
+Because the development was stalled by the original authors the
+development continued in the "Tools for Medical Image Analysis"
+framework (<a href="http://mia.sourceforge.net/">http://mia.sourceforge.net/</a>) which is maintained by
+Max Planck Institute of Cognitive Neuroscience
+(<a href="http://www.cns.mpg.de/">http://www.cns.mpg.de/</a>).
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="maris">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="maris" id="maris"/>
+ <strong>Maris</strong><br/>
+ <em>package suite for Radiological Workflow</em><br/>
+ <a href="http://maris.homelinux.org/">http://maris.homelinux.org/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: GPL</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">The MARiS Project goal is to realize a package suite for Radiological
+Workflow using Open Source tools and technologies in according with
+IHE guidelines. The architecture of the single packages is based on
+the concept of IHE actor: this is very useful to develope a system
+that is an ensamble of single pieces that cooperate together using
+IHE profiles.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="mesa-test-tools">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="mesa-test-tools" id="mesa-test-tools"/>
+ <strong>Mesa-test-tools</strong><br/>
+ <em>IHE Test Software for Radiology</em><br/>
+ <a href="http://ihedoc.wustl.edu/mesasoftware/">http://ihedoc.wustl.edu/mesasoftware/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: free</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">The MESA software release which is available at
+<a href="http://ihedoc.wustl.edu/mesasoftware/10.15.0/dist/">http://ihedoc.wustl.edu/mesasoftware/10.15.0/dist/</a> provides several
+tools that might cover a wide range of applications for
+Integrating the Healthcare Enterprise (IHE) testing.
+<br/>
+Another important element of the IHE testing process is the set of
+software tools HIMSS and RSNA have commissioned. Developed by the
+Electronic Radiology Laboratory at the Mallinckrodt Institute of
+Radiology, Washington University of St. Louis, the MESA tools are
+designed for use by participating companies in implementing IHE
+capabilities in their systems and preparing for the Connectathon. Their
+purpose is to provide communication partners, test data and test plans
+to allow organizations to provide a baseline level of testing as they
+implement the IHE Technical Framework. These tools are made available to
+participants during the period of an IHE demonstration year and are then
+released into the public domain at the end of that cycle. The latest
+version of the MESA Test Tools available in the public domain can be
+found here.
+<br/>
+This kind of software is definitively valuable for information systems
+vendors and imaging systems vendors.
+<br/>
+Because the CTN Debian package is based on an upstream dead project
+these tools should have a high priority for packaging because the
+CTN homepage <a href="http://erl.wustl.edu/research/dicom/ctn.html">http://erl.wustl.edu/research/dicom/ctn.html</a> says:
+"The CTN software is also embedded within the MESA tools. The version
+of CTN software in those tools does not have a separate release number
+but is more current than version 3.0.6."
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="opensourcepacs">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="opensourcepacs" id="opensourcepacs"/>
+ <strong>Opensourcepacs</strong><br/>
+ <em>medical image referral, archiving, routing and viewing system</em><br/>
+ <a href="http://www.mii.ucla.edu/index.php/MainSite:OpenSourcePacsHome">http://www.mii.ucla.edu/index.php/MainSite:OpenSourcePacsHome</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: GPL</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">OpenSourcePACS is a free, open source image referral, archiving,
+routing and viewing system. It adds functionality beyond conventional
+PACS by integrating wet read functions, implemented through DICOM
+Presentation State and Structured Reporting standards.
+<br/>
+In its first release, OpenSourcePACS delivers a complete wet read
+system, enabling an imaging clinic or hospital to offer its services
+over the web to physicians within or outside the institution. In
+future releases, we hope to incorporate more RIS (dictation,
+transcription, and reporting) functionality.
+<br/>
+OpenSourcePACS is a product of the UCLA Medical Imaging Informatics
+group (<a href="http://www.mii.ucla.edu/">http://www.mii.ucla.edu/</a>).
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="piano">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="piano" id="piano"/>
+ <strong>Piano</strong><br/>
+ <em>medical image processing library for surgical planning</em><br/>
+ <a href="http://mbi.dkfz-heidelberg.de/mbi/software/">http://mbi.dkfz-heidelberg.de/mbi/software/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: BSD</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">Piano is a library containing roughly 75 algorithms and tools for
+multi-dimensional medical image processing, analysis and visualization.
+It is used in the field of surgical planning.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="pixelmed">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="pixelmed" id="pixelmed"/>
+ <strong>Pixelmed</strong><br/>
+ <em>PixelMed Java DICOM Toolkit</em><br/>
+ <a href="http://www.pixelmed.com/index.html#PixelMedJavaDICOMToolkit">http://www.pixelmed.com/index.html#PixelMedJavaDICOMToolkit</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: Free</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">This is a stand-alone DICOM toolkit that implements code for reading and
+creating DICOM data, DICOM network and file support, a database of DICOM objects,
+support for display of directories, images, reports and spectra, and DICOM object
+validation.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="pixelmed-dicom-toolkit">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="pixelmed-dicom-toolkit" id="pixelmed-dicom-toolkit"/>
+ <strong>Pixelmed-dicom-toolkit</strong><br/>
+ <em>This is a stand-alone DICOM toolkit that implements code for reading</em><br/>
+ <a href="http://www.pixelmed.com/index.html#PixelMedJavaDICOMToolkit">http://www.pixelmed.com/index.html#PixelMedJavaDICOMToolkit</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: BSD</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">and creating DICOM data, DICOM network and file support, a database
+of DICOM objects, support for display of directories, images, reports
+and spectra, and DICOM object validation.
+<br/>
+The toolkit is a completely new implementation, which does not depend
+on any other DICOM tools, commercial or free. It does make use of
+other freely available pure Java tools for compression and XML and
+database support.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="slicer">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="slicer" id="slicer"/>
+ <strong>Slicer</strong><br/>
+ <em>visualization, registration, segmentation, and quantification of medical data</em><br/>
+ <a href="http://www.slicer.org/">http://www.slicer.org/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: BSD like</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">The 3D Slicer is freely available, open-source software for visualization,
+registration, segmentation, and quantification of medical data. The slicer
+source seems to be available via CVS only.
+<br/>
+The license statement can be seen at
+<a href="http://www.slicer.org/cgi-bin/License/SlicerLicenseForm.pl">http://www.slicer.org/cgi-bin/License/SlicerLicenseForm.pl</a>
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="sofa">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="sofa" id="sofa"/>
+ <strong>Sofa</strong><br/>
+ <em>Simulation Open Framework Architecture</em><br/>
+ <a href="http://www.sofa-framework.org/">http://www.sofa-framework.org/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: LGPL</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">SOFA (Simulation Open Framework Architecture) is an Open Source framework
+primarily targeted at real-time simulation, with an emphasis on medical
+simulation. It is mostly intended for the research community to help develop
+newer algorithms, but can also be used as an efficient prototyping tool.
+Based on an advanced software architecture, it allows to:
+<pre>
+ * create complex and evolving simulations by combining new algorithms
+ with algorithms already included in SOFA
+ * modify most parameters of the simulation - deformable behavior, surface
+ representation, solver, constraints, collision algorithm, etc. - by
+ simply editing an XML file
+ * build complex models from simpler ones using a scene-graph description
+ * efficiently simulate the dynamics of interacting objects using abstract
+ equation solvers
+ * reuse and easily compare a variety of available methods
+</pre>
+SOFA version 1.0 beta 1 was released during the Medicine Meets Virtual
+Reality 2007 conference in Long Beach, California.
+</td>
+ </tr>
+ </tbody>
+ </table>
+<table class="project" summary="visit">
+ <tbody>
+ <tr class="deb-not-available">
+ <td class="project-name">
+ <a name="visit" id="visit"/>
+ <strong>Visit</strong> — <a href="http://bugs.debian.org/395573">wnpp</a><br/>
+ <em>visualization and graphical analysis tool for viewing scientific data</em><br/>
+ <a href="http://www.llnl.gov/visit/">http://www.llnl.gov/visit/</a><br/>
+ Responsible: no one
+ </td>
+ <td class="project-license">
+ <em>License: 3-clause BSD license with additional disclaimers</em><br/>
+ Debian package not available </td>
+ </tr>
+ <tr>
+ <td colspan="2" class="project-description">VisIt is a free interactive parallel visualization and graphical
+analysis tool for viewing scientific data. Users can quickly
+generate visualizations from their data, animate them through time,
+manipulate them, and save the resulting images for presentations.
+VisIt contains a rich set of visualization features so that you can
+view your data in a variety of ways. It can be used to visualize
+scalar and vector fields defined on two- and three-dimensional (2D
+and 3D) structured and unstructured meshes.
+<br/>
+VisIt was designed to handle very large data set sizes in the terascale
+range and yet can also handle small data sets in the kilobyte range.
+</td>
+ </tr>
+ </tbody>
+ </table>
+ </div>
+ </td>
+</tr>
+</table>
+<address>Last update: Thu, 03 Apr 2008 12:01:16 -0000</address>
+<address>Please note: this page gets automatically updated twice a day, on 00:00 and 12:00 UTC.</address>
+<hr/>
+<address>$ SVN export - rev. 1583 - Last update by <a href="http://alioth.debian.org/users/tille">tille</a> - Fri, 14 Mar 2008 07:32:46 +0000 $</address>
+</body>
+</html>
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