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
15 this project, and :ref:`read what people say about it <testimonials>`.
16 If you appreciate this service, please |spread|.
20 This service is provided "as is". There is no guarantee that a package
21 works as expected, so use them at your own risk. If you encounter problems,
22 please `report <#contacts>`_ them.
28 <a href="pkgs.html"><img border="0" src="_static/package.png" title="Software package list" /></a>
29 <a href="datasets.html"><img border="0" src="_static/datasets.png" title="Dataset package list" /></a>
30 <a href="vm.html"><img border="0" src="_static/machine.png" title="Get NeuroDebian for your non-Debian computer" /></a>
31 <a href="debian/pool"><img border="0" src="_static/pool.png" title="Go to the package pool (deep and cold, only for experts)" /></a>
34 .. _Ubuntu: http://www.ubuntu.com
41 <script src="http://widgets.twimg.com/j/2/widget.js"></script>
52 background: '#898989',
56 background: '#ffffff',
70 }).render().setUser('NeuroDebian').start();
73 Follow us on twitter_ to subscribe to the NeuroDebian news.
75 .. _twitter: http://twitter.com/NeuroDebian
81 How to use this repository
82 ==========================
84 The easiest way to use this repository is to download an APT-configuration file
85 (`sources.list`). Simply choose your target distribution/release and download
86 the configuration for a mirror close to you (depending on your browser, you
87 might have to right-click and choose 'save as'). Once downloaded, put the file
88 in the `/etc/apt/sources.list.d/` directory on your system. Moving files in
89 this directory will require superuser privileges, therefore you should probably
90 download the file into a temporary directory and subsequently move it into
91 `/etc/apt/sources.list.d/`. APT-configurations are available for the following
92 releases and repository mirrors:
94 .. include:: sources_lists
97 Thanks to the following institutions and individuals for hosting a mirror:
99 * `Department of Psychological and Brain Sciences at Dartmouth College`_
100 *[us-nh]* (primary mirror)
101 * `Department of Experimental Psychology at the University of Magdeburg`_
103 * `Neurobot at Aristotle University of Thessaloniki, Greece`_ *[gr]*
104 * `Paul Ivanov`_ *[us-ca]*
105 * `Medical-image Analysis and Statistical Interpretation lab at Vanderbilt`_
108 If your are interested in mirroring the repository, please see the :ref:`faq`.
110 .. _Department of Psychological and Brain Sciences at Dartmouth College: http://www.dartmouth.edu/~psych
111 .. _Department of Experimental Psychology at the University of Magdeburg: http://apsy.gse.uni-magdeburg.de
112 .. _Neurobot at Aristotle University of Thessaloniki, Greece: http://neurobot.bio.auth.gr
113 .. _Paul Ivanov: http://www.pirsquared.org
114 .. _Medical-image Analysis and Statistical Interpretation lab at Vanderbilt: https://masi.vuse.vanderbilt.edu
116 Once this is done, you have to update the package index. Use your favorite
117 package manager, e.g. synaptic, adept, or whatever you like. In the terminal
118 you can use :command:`aptitude` to achieve the same::
122 Now, you can proceed to install packages, e.g.::
124 sudo aptitude install lipsia
127 Not every package is available for all distributions/releases. For information
128 about which package version is available for which release and architecture,
129 please have a look at the corresponding package pages.
131 After this initial setup you probably also want to configure your package
132 manager to recognize the NeuroDebian archive key. With this key the package
133 manager can verify that packages haven't been modified and are identical with
134 the ones in the main NeuroDebian archive, regardless of which mirror you
135 downloaded them from. The NeuroDebian key id is **2649A5A9**. If you need further
136 help setting up package authentication, please take a look at
137 :ref:`corresponding FAQ <sec_pkg_authentication>`.
140 .. _chap_installation:
142 Ways to use NeuroDebian
143 =======================
148 If you are not running Debian_ on a particular machine a :ref:`chap_vm` is
149 provided as a convenient testing and evaluation environment. After a few
150 simple steps to setup the virtual machine, you will be able to use NeuroDebian_
151 as an integral part of your existing working environment without any sacrifice.
152 The virtual machine is also a suitable environment to temporarily deploy
153 neuroscience software on machines running other operating systems, e.g. for the
154 purpose of teaching a neuroimaging data analysis course in a multipurpose
161 Having been exposed to the wonders of NeuroDebian_ you are no longer
162 satisfied with your previous choice of operating system? We would
163 recommend installing Debian_ to replace or complement (dual-boot) your
164 existing OS. Please visit `"Getting Debian"
165 <http://www.debian.org/distrib/>`_ to obtain the images for your
166 hardware architecture and then simply add |repos|.
175 Our main goal is to provide neuroscience FOSS_ for Debian_. Thus the
176 whole project would not be possible without the work of over 3,000
177 Debian_ developers and contributors who are as enthusiastically pursuing
178 a similar goal. To add our share -- Debian_ packages of FOSS_ for
179 neuroscience research -- the `Experimental Psychology Debian packaging
180 project <http://alioth.debian.org/projects/pkg-exppsy>`_ was created
181 to formally join the forces of
183 * `Michael Hanke <http://mih.voxindeserto.de>`_
184 * `Yaroslav Halchenko <http://www.onerussian.com>`_
186 A number of packages that are now available from the NeuroDebian repository
187 were not packaged by our team, but similar Debian teams. Therefore we want to
188 express particular gratitude to the `Debian Med`_ and `Debian Science`_ teams
191 .. _FOSS: http://en.wikipedia.org/wiki/Free_and_open_source_software
197 `Email us directly <team@neuro.debian.net>`_ with any "private"
198 communication. Otherwise please use our public mailing lists, which
199 exist not only to provide user-support but also to establish
200 communication channels within the NeuroDebian community
202 * neurodebian-users_: Discussions and support of NeuroDebian users
204 * neurodebian-upstream_: General discussions and knowledge sharing
205 among developers of the neuroscience software. We will also use it
206 to update you with summaries of recent relevant developments in
209 * neurodebian-devel_: Technical mailing list for discussions on
210 NeuroDebian development
212 .. _neurodebian-users: http://lists.alioth.debian.org/mailman/listinfo/neurodebian-users
213 .. _neurodebian-devel: http://lists.alioth.debian.org/mailman/listinfo/neurodebian-devel
214 .. _neurodebian-upstream: http://lists.alioth.debian.org/mailman/listinfo/neurodebian-upstream
220 We are grateful to Jim Haxby for his continued support and :ref:`endless supply of
221 Italian espresso <coffeeart>`.
234 .. probably should be purged altogether
246 .. include:: links_names.rst
247 .. include:: substitutions.rst