added Ginkgo CADx to lin4neuro descr + more links to software projects

diff --git a/sphinx/derivatives.rst b/sphinx/derivatives.rst
index 97016ab0f5d74cb6d42890c60c5e522d8bb820f0..b80cbaf35c0f835efbe9c1b3546830473e1bf000 100644 (file)
--- a/sphinx/derivatives.rst
+++ b/sphinx/derivatives.rst
@@ -41,12 +41,12 @@ USB Stick for Computational Neuroscience by Cengiz Günay
 |**Purpose**                | Computational neuroscience tools for course-work      |
 +---------------------------+-------------------------------------------------------+
 |**Features**               | - Persistent Storage                                  |
-|                           | - Based on Ubuntu 11.04                               |
+|                           | - Based on Ubuntu_ 11.04                              |
 +---------------------------+-------------------------------------------------------+
 |**Pre-installed Software** | NeuroDebian                                           |
-|                           |   TBA                                                 |
+|                           |  TBA                                                  |
 |                           | Custom:                                               |
-|                           |   Genesis 2.3, Neuron 7.2, XPPAUT 6.10                |
+|                           |  Genesis_ 2.3, Neuron_ 7.2, XPPAUT_ 6.10              |
 +---------------------------+-------------------------------------------------------+
 |**Download**               | TBA                                                   |
 +---------------------------+-------------------------------------------------------+
@@ -64,14 +64,14 @@ Lin4Neuro
 +---------------------------+-------------------------------------------------------+
 |**Purpose**                | Neuroimaging tools for course-work                    |
 +---------------------------+-------------------------------------------------------+
-|**Features**               | - Datasets and tutorials from C.Rorden (MRIcron)      |
+|**Features**               | - Datasets and tutorials from C.Rorden (mricron_)     |
 |                           | - Both 32- and 64-bit images                          |
-|                           | - Based on Ubuntu 10.04 LTS                           |
+|                           | - Based on Ubuntu_ 10.04 LTS                          |
 +---------------------------+-------------------------------------------------------+
 |**Pre-installed Software** | NeuroDebian                                           |
-|                           |   AFNI, AMIDE, Caret, FSL, LIPSIA, MRIcron, etc.      |
+|                           |  AFNI_, AMIDE, Caret_, FSL_, LIPSIA_, mricron_, etc.  |
 |                           | Custom:                                               |
-|                           |   3DSlicer, MINC, MRIConvert, Virtual MRI             |
+|                           |  3DSlicer, Ginkgo CADx, MINC, MRIConvert, Virtual MRI |
 +---------------------------+-------------------------------------------------------+
 |**Download**               | ftp://ftp.nemotos.net/ [~2GB]                         |
 +---------------------------+-------------------------------------------------------+
@@ -90,14 +90,14 @@ XNAT
 +---------------------------+-------------------------------------------------------+
 |**Homepage**               | http://datasharing.incf.org/ni/Install_XNAT           |
 +---------------------------+-------------------------------------------------------+
-|**Purpose**                | XNAT deployment                                       |
+|**Purpose**                | XNAT_ deployment                                      |
 +---------------------------+-------------------------------------------------------+
-|**Features**               | - XNAT 1.5                                            |
+|**Features**               | - XNAT_ 1.5                                            |
 |                           | - 64-bit only                                         |
 |                           | - Based on NeuroDebian VM appliance                   |
 +---------------------------+-------------------------------------------------------+
 |**Pre-installed Software** | Custom:                                               |
-|                           |   XNAT                                                |
+|                           |  XNAT_                                                |
 +---------------------------+-------------------------------------------------------+
 |**Download**               | `XNAT 1.5.0 NeuroDebian VM <xnat_vm_image>`_          |
 +---------------------------+-------------------------------------------------------+

diff --git a/sphinx/link_names.txt b/sphinx/link_names.txt
index 3071b03213628e257689a67089c58c0caf321ddf..c4d72248815351c4d997409aa670fe50db5c680f 100644 (file)
--- a/sphinx/link_names.txt
+++ b/sphinx/link_names.txt
@@ -16,6 +16,10 @@
 .. _nibabel: http://nipy.sourceforge.net/nibabel
 .. _dipy: http://nipy.sourceforge.net/dipy
 
+.. _Neuron: http://www.neuron.yale.edu/neuron
+.. _XPPAUT: http://www.math.pitt.edu/~bard/xpp/xpp.html
+.. _Genesis: http://www.genesis-sim.org
+
 .. Documentation tools
 .. _graphviz: http://www.graphviz.org/
 .. _Sphinx: http://sphinx.pocoo.org/
@@ -83,16 +87,19 @@
 .. _pydicom: http://code.google.com/p/pydicom/
 
 .. Not so python imaging projects
+.. _Caret: http://brainvis.wustl.edu/wiki/index.php/Caret:About
 .. _matlab: http://www.mathworks.com
 .. _spm: http://www.fil.ion.ucl.ac.uk/spm
 .. _spm8: http://www.fil.ion.ucl.ac.uk/spm/software/spm8
 .. _eeglab: http://sccn.ucsd.edu/eeglab
 .. _AFNI: http://afni.nimh.nih.gov/afni
 .. _FSL: http://www.fmrib.ox.ac.uk/fsl
+.. _LIPSIA: http://www.cbs.mpg.de/institute/software/lipsia
 .. _FreeSurfer: http://surfer.nmr.mgh.harvard.edu
 .. _voxbo: http://www.voxbo.org
 .. _mricron: http://www.cabiatl.com/mricro/mricron
 .. _slicer: http://www.slicer.org/
+.. _XNAT: http://xnat.org
 
 .. File formats
 .. _DICOM: http://medical.nema.org/
@@ -116,6 +123,7 @@
 .. _swig: http://www.swig.org
 .. _NeuroDebian: http://neuro.debian.net
 .. _Debian: http://www.debian.org
+.. _Ubuntu: http://www.ubuntu.com
 .. _exppsy: http://alioth.debian.org/projects/pkg-exppsy
 .. _`Debian Med`: http://debian-med.alioth.debian.org
 .. _`Debian Science`: http://wiki.debian.org/DebianScience