3 ***********************************************
4 Welcome to the Debian Neuroscience Repository
5 ***********************************************
10 This repository provides mostly neuroscience-related packages to be used on
11 Debian_ systems (or Debian-derivatives like Ubuntu_). It contains both unofficial
12 or prospective packages which are not (yet) available from the main Debian_
13 archive, as well as backported or simply rebuilt packages also available
14 elsewhere. Please see the :ref:`faq` for more information about the goals of
17 This service is provided "as is". There is no guarantee that a package
18 works as expected, so use them at your own risk. If you encounter problems,
19 please `report <#contacts>`_ them.
21 Please |spread|, if you like it.
26 <a href="pkgs.html"><img border="0" src="_static/package.png" title="Software package list" /></a>
27 <a href="datasets.html"><img border="0" src="_static/datasets.png" title="Dataset package list" /></a>
28 <a href="vm.html"><img border="0" src="_static/machine.png" title="Get NeuroDebian for your non-Debian computer" /></a>
29 <a href="debian/pool"><img border="0" src="_static/pool.png" title="Go to the package pool (deep and cold, only for experts)" /></a>
32 .. _Ubuntu: http://www.ubuntu.com
39 <script src="http://widgets.twimg.com/j/2/widget.js"></script>
50 background: '#898989',
54 background: '#ffffff',
68 }).render().setUser('NeuroDebian').start();
71 Follow us on twitter_ to subscribe to the NeuroDebian news.
73 .. _twitter: http://twitter.com/NeuroDebian
79 How to use this repository
80 ==========================
82 The easiest way to use this repository is to download an APT-configuration file
83 (`sources.list`). Simply choose your target distribution/release and download
84 the configuration for a mirror close to you (depending on your browser, you
85 might have to right-click and choose 'save as'). Once downloaded, put the file
86 in the `/etc/apt/sources.list.d/` directory on your system. Moving files in
87 this directory will require superuser privileges, therefore you should probably
88 download the file into a temporary directory and subsequently move it into
89 `/etc/apt/sources.list.d/`. APT-configurations are available for the following
90 releases and repository mirrors:
92 .. include:: sources_lists
95 Thanks to the following institutions and individuals for hosting a mirror:
97 * `Department of Psychological and Brain Sciences at Dartmouth College`_
98 *[us-nh]* (primary mirror)
99 * `Department of Experimental Psychology at the University of Magdeburg`_
101 * `Neurobot at Aristotle University of Thessaloniki, Greece`_ *[gr]*
102 * `Paul Ivanov`_ *[us-ca]*
103 * `Medical-image Analysis and Statistical Interpretation lab at Vanderbilt`_
106 If your are interested in mirroring the repository, please see the :ref:`faq`.
108 .. _Department of Psychological and Brain Sciences at Dartmouth College: http://www.dartmouth.edu/~psych
109 .. _Department of Experimental Psychology at the University of Magdeburg: http://apsy.gse.uni-magdeburg.de
110 .. _Neurobot at Aristotle University of Thessaloniki, Greece: http://neurobot.bio.auth.gr
111 .. _Paul Ivanov: http://www.pirsquared.org
112 .. _Medical-image Analysis and Statistical Interpretation lab at Vanderbilt: https://masi.vuse.vanderbilt.edu
114 Once this is done, you have to update the package index. Use your favorite
115 package manager, e.g. synaptic, adept, or whatever you like. In the terminal
116 you can use :command:`aptitude` to achieve the same::
120 Now, you can proceed to install packages, e.g.::
122 sudo aptitude install lipsia
125 Not every package is available for all distributions/releases. For information
126 about which package version is available for which release and architecture,
127 please have a look at the corresponding package pages.
130 Package authentication
131 ----------------------
133 When you start using this repository, you probably get warning messages
136 The following signatures couldn't be verified because
137 the public key is not available.
139 Or you will be asked questions like this over and over::
141 WARNING: The following packages cannot be authenticated!
143 Install these packages without verification [y/N]?
145 This is because your APT installation initially does not know the GPG
146 key that is used to sign the release files of this repository. It is easy to
147 make APT happy again:
149 1. Get the key. Either download the `repository key from here
150 <_static/neuro.debian.net.asc>`_
151 or fetch it from http://wwwkeys.pgp.net (2649A5A9).
153 2. Now feed the key into APT by invoking::
157 Where `#file#` has to be replaced with the location of the key file you just
158 downloaded. You need to have superuser-privileges to do this (either do it
159 as root or use sudo).
162 .. _chap_installation:
170 If you are not running Debian_ on a particular machine a :ref:`chap_vm` is
171 provided as a convenient testing and evaluation environment. After a few
172 simple steps to setup the virtual machine, you will be able to use NeuroDebian_
173 as an integral part of your existing working environment without any sacrifice.
174 The virtual machine is also a suitable environment to temporarily deploy
175 neuroscience software on machines running other operating systems, e.g. for the
176 purpose of teaching a neuroimaging data analysis course in a multipurpose
183 Having been exposed to the wonders of NeuroDebian_ you are no longer
184 satisfied with your previous choice of operating system? We would
185 recommend installing Debian_ to replace or complement (dual-boot) your
186 existing OS. Please visit `"Getting Debian"
187 <http://www.debian.org/distrib/>`_ to obtain the images for your
188 hardware architecture and then simply add |repos|.
197 Our main goal is to provide neuroscience FOSS_ for Debian_. Thus the
198 whole project would not be possible without the work of over 3,000
199 Debian_ developers and contributors who are as enthusiastically pursuing
200 a similar goal. To add our share -- Debian_ packages of FOSS_ for
201 neuroscience research -- the `Experimental Psychology Debian packaging
202 project <http://alioth.debian.org/projects/pkg-exppsy>`_ was created
203 to formally join the forces of
205 * `Michael Hanke <http://mih.voxindeserto.de>`_
206 * `Yaroslav Halchenko <http://www.onerussian.com>`_
208 A number of packages that are now available from the NeuroDebian repository
209 were not packaged by our team, but similar Debian teams. Therefore we want to
210 express particular gratitude to the `Debian Med`_ and `Debian Science`_ teams
213 .. _FOSS: http://en.wikipedia.org/wiki/Free_and_open_source_software
219 `Email us directly <team@neuro.debian.net>`_ with any "private"
220 communication. Otherwise please use our public mailing lists, which
221 exist not only to provide user-support but also to establish
222 communication channels within the NeuroDebian community
224 * neurodebian-users_: Discussions and support of NeuroDebian users
226 * neurodebian-upstream_: General discussions and knowledge sharing
227 among developers of the neuroscience software. We will also use it
228 to update you with summaries of recent relevant developments in
231 * neurodebian-devel_: Technical mailing list for discussions on
232 NeuroDebian development
234 .. _neurodebian-users: http://lists.alioth.debian.org/mailman/listinfo/neurodebian-users
235 .. _neurodebian-devel: http://lists.alioth.debian.org/mailman/listinfo/neurodebian-devel
236 .. _neurodebian-upstream: http://lists.alioth.debian.org/mailman/listinfo/neurodebian-upstream
242 We are grateful to Jim Haxby for his continued support and :ref:`endless supply of
243 Italian espresso <coffeeart>`.
256 .. probably should be purged altogether
268 .. include:: links_names.rst
269 .. include:: substitutions.rst