X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=sphinx%2Findex.rst;h=eaa94129f91197276fcd22436f88af1d5a1f3822;hb=6e44c25769530df07831e76965a6345939f0515f;hp=48871ed973c0943bccc93b3ff7719d2191208e13;hpb=6b99bca5d3083066abeaad769ec29b45c1da9db9;p=neurodebian.git diff --git a/sphinx/index.rst b/sphinx/index.rst index 48871ed..eaa9412 100644 --- a/sphinx/index.rst +++ b/sphinx/index.rst @@ -1,16 +1,16 @@ .. _WELCOme: -************* - NeuroDebian -************* +********************************************* + The Ultimate Neuroscience Software Platform +********************************************* NeuroDebian provides a large collection of popular neuroscience research software for the Debian_ operating system as well as Ubuntu_ and other derivatives. Popular packages include FSL, Freesurfer, AFNI, PyMVPA and -:ref:`many others `. While we do strive to maintain a high level of +:ref:`many others `. While we do strive to maintain a high level of quality, we make no guarantee that a given package works as expected, so use -them at your own risk. If you do encounter problems or would just like to thank -us, simply `send us an email <#contacts>`_. +them at your own risk. If you do encounter problems or you just like to say +thanks, simply `send us an email <#contacts>`_. Learn more about NeuroDebian, the goals of this project, and help us |spread|! @@ -21,6 +21,8 @@ Learn more about NeuroDebian, the goals of this project, and help us |spread|! .. raw:: html +
more publications
+
@@ -31,6 +33,7 @@ Learn more about NeuroDebian, the goals of this project, and help us |spread|! .. raw:: html
+
more testimonials
.. _Ubuntu: http://www.ubuntu.com @@ -40,61 +43,7 @@ Learn more about NeuroDebian, the goals of this project, and help us |spread|! Get NeuroDebian =============== -Make your selection to enable NeuroDebian on your computer: - -.. include:: sources_lists - -.. raw:: html - - - - +.. include:: reposetup.rst .. _news: @@ -112,229 +61,60 @@ News limit: 10, rate: 300000}); - -For more news and information see our :ref:`blog `. Older news items are -available on identi.ca_. Follow us on identi.ca_ (preferred) or twitter_ to -subscribe to the NeuroDebian news. +
+ The news widget requires javascript +
.. _identi.ca: http://identi.ca/neurodebian .. _twitter: http://twitter.com/NeuroDebian - - -.. _support: - -Contacts -======== - -`Email us directly `_ with any "private" -communication. Otherwise please use our public mailing lists, which -exist not only to provide user-support but also to establish -communication channels within the NeuroDebian community - -* neurodebian-users_: Discussions and support of NeuroDebian users - -* neurodebian-upstream_: General discussions and knowledge sharing - among developers of neuroscience software. We also use it - to update you with summaries of recent relevant developments in - Debian project - -* neurodebian-devel_: Technical mailing list for discussions on - NeuroDebian development - -You are welcome also to join #neurodebian IRC room on OFTC network if -you have quick questions or want to join a live discussion. - -.. _chap_team: - -The team -======== - -`Michael Hanke `_ and `Yaroslav Halchenko -`_ originally started NeuroDebian (formerly the -`Experimental Psychology Debian packaging project -`_) and are the current project -leaders. However, the whole project would not be possible without the work of -over 3,000 Debian_ developers and contributors who are as enthusiastically -building the Debian operating system. -A number of packages that are available from the NeuroDebian repository have -been contributed by various individuals and other teams in Debian, such as -`Debian Med`_ and `Debian Science`_. We want to express our gratitude to all -maintainers_ that help to make Debian_ the ultimate software platform for -neuroscience. - -.. _maintainers: pkgs.html#by-maintainer - - -Acknowledgements -================ - -We are grateful to `Jim Haxby`_ for his continued support and :ref:`endless supply of -Italian espresso `. - -.. _Jim Haxby: http://haxbylab.dartmouth.edu/ppl/jim.html - -Thanks to the following institutions and individuals for hosting a mirror: - -* `Department of Psychological and Brain Sciences at Dartmouth College`_ - *[us-nh]* (primary mirror) -* `Department of Experimental Psychology at the University of Magdeburg`_ - *[de-md]* -* `Neurobot at Aristotle University of Thessaloniki, Greece`_ *[gr]* -* `Paul Ivanov`_ *[us-ca]* -* `Medical-image Analysis and Statistical Interpretation lab at Vanderbilt`_ - *[us-tn]* -* `Australia's research and education network (AARNET) - `_ *[au]* -* Kiyotaka Nemoto (AKA Mr. Lin4Neuro_) *[jp]* -* Iaroslav Iurchenko *[ua]* -* `Nikolaus Valentin Haenel`_ *[de-v]* - -If your are interested in mirroring the repository, please see the :ref:`faq`. - -.. _Department of Psychological and Brain Sciences at Dartmouth College: http://www.dartmouth.edu/~psych -.. _Department of Experimental Psychology at the University of Magdeburg: http://apsy.gse.uni-magdeburg.de -.. _Neurobot at Aristotle University of Thessaloniki, Greece: http://neurobot.bio.auth.gr -.. _Paul Ivanov: http://www.pirsquared.org -.. _Medical-image Analysis and Statistical Interpretation lab at Vanderbilt: https://masi.vuse.vanderbilt.edu -.. _Nikolaus Valentin Haenel: http://haenel.co - - -Publications -============ - -Hanke, M. (2012). `Share your tools! But fear the wombat! Seriously. -`_ *Talk -given at* `Brainhack `_ 2012 at the -Max-Planck-Institute for Human Cognitive and Brain Sciences*, Leipzig, Germany. -[`video `_] - -Hanke, M. (2012). `Computational and cognitive neuroscience boosted by Debian -OR Just using Debian is not enough -`_. -Talk given at the workshop "Debian for Scientific Facilities Days" at the -European Synchrotron Radiation Facility (ESRF), Grenoble, France. - -Halchenko, Y. O. & Hanke, M. (2012). `Open is not enough. Let’s take the -next step: An integrated, community-driven computing platform for neuroscience -`_. *Frontiers in Neuroinformatics*, -6:22. - .. raw:: html - -
- -Hanke, M. (2012). `The why and how of getting packaged -<_files/Hanke_GetPackaged_CodeJam5_2012.pdf>`_. -*Talk given at BrainScaleS CodeJam 5, Convergence in Computational Neuroscience*, -University of Edinburgh, Edinburgh, UK. - -Halchenko, Y. O. & Hanke, M. (2012). `Environments for efficient -contemporary research in neuroimaging: PyMVPA and NeuroDebian -<_files/HalchenkoHanke_ContemporaryNeuroimaging_PENN2012.pdf>`_. -*Talk given at the University of Pennsylvania School of Medicine*, -Philadelphia, PA, USA. - -Hanke, M. (2012). `Rock solid, brand new, everyday, for free, not a joke: -NeuroDebian <_files/Hanke_NeuroDebian_MPI2012.pdf>`_. -*Talk given at the Max-Planck-Institute for Human Cognitive and Brain -Sciences*, Leipzig, Germany. - -Hanke, M. (2011). `More than batteries included: NeuroDebian -<_files/Hanke_NeuroDebian_EuroSciPy2011.pdf>`_. -*Talk given at the Python in Neuroscience satellite of EuroScipy 2011*, -Paris, France. - -Halchenko, Y. O. (2011). `π's in Debian or Scientific Debian: NumPy, SciPy and beyond -<_files/Halchenko_EuroScipy11_3_14s_in_Debian.pdf>`_. -*Talk given at* `EuroScipy 2011 `_, -Paris, France. - -Hanke, M. & Halchenko, Y. O. (2011). `Neuroscience runs on GNU/Linux -`_. -*Frontiers in Neuroinformatics, 5:8*. - -Hanke, M., Halchenko, Y. O. & Haxby, J. V. (2011). `NeuroDebian -- versatile -platform for brain-imaging research <_files/NeuroDebian_HBM2011.png>`_ -*Poster presented at the annual meeting of the Organisation for Human Brain -Mapping*, Quebec City, Canada. - -Hanke, M. (2011). `Integrating Condor into the Debian operating system -<_files/Hanke_CondorDebianIntegration_CondorWeek2011.pdf>`_. -*Talk given at* `CondorWeek 2011 -`_, -Madison, Wisconsin, USA. - -Hanke, M. & Halchenko, Y. O. (2010). :ref:`Report from the Debian booth at -SfN2010 `. *Annual meeting of the Society for -Neuroscience*, San Diego, USA. - -Halchenko, Y. O., Hanke, M., Haxby, J. V., Pollmann, S. & Raizada, R. D. -(2010). `Having trouble getting your Nature paper? Maybe you are not using the -right tools? <_files/NeuroDebian_SfN2010.png>`_ *Poster presented at the -annual meeting of the Society for Neuroscience*, San Diego, USA. - -Hanke, M., Halchenko, Y. O. (2010). `Debian: The ultimate platform for -neuroimaging research <_files/HankeHalchenko_NeuroDebianDebConf10.pdf>`_. -*Talk given at* DebConf10_, New York City, USA. [video: -`low resolution `_, -`high resolution `_] - -Hanke, M., Halchenko, Y. O., Haxby, J. V. & Pollmann, S. (2010). `Improving -efficiency in cognitive neuroscience research with NeuroDebian -<_files/NeuroDebian_CNS2010.pdf>`_. *Poster presented at the annual -meeting of the Cognitive Neuroscience Society*, Montréal, Canada. - -Halchenko, Y. O., Hanke, M. (2009). `An ecosystem of neuroimaging, -statistical learning, and open-source software to make research more -efficient, more open, and more fun -<_files/HalchenkoHanke_FossEcosystemDC09.pdf>`_. *Talk given at* -`Dartmouth College`_, New Hampshire, USA. - -.. raw:: html - -
- -.. _DebConf10: http://debconf10.debconf.org/ -.. _Dartmouth College: http://www.dartmouth.edu/ - -Popularity -========== +
+
+ +* **About** +* :ref:`The Team ` +* :ref:`FAQ ` +* :ref:`Blog ` +* :ref:`chap_popularity` +* :ref:`chap_publications` +* :ref:`chap_acknowledgements` +* :ref:`testimonials` +* :ref:`coffeeart` + +.. start a new list + +* **Services** +* :ref:`Software ` +* :ref:`Data ` +* :ref:`Appliance ` + +.. start a new list + +* **Community** +* :ref:`Contacts ` +* :ref:`Mailing lists ` +* `OpenHatch `_ +* `Identi.ca `_ +* `Twitter `_ +* `Google+ `_ +* `YouTube `_ +* `GitHub `_ + +.. start a new list + +* **Related** +* `Debian `_ +* `Debian Med `_ +* `INCF `_ +* `NITRC `_ .. raw:: html -

- -Popularity Contest ------------------- - -We encourage you to participate in the `popularity -contest `_ (popcon), which anonymously -collects the list of packages you installed/use on your system. -Collecting such statistics is of particular importance for research -software projects as a prove of an existing user-base. If upon -installation of the system you rejected the invitation to participate -you can always change your decision by running:: - - sudo dpkg-reconfigure popularity-contest - -.. note:: - - If you are deploying multiple systems through cloning, to not have - all systems considered as one, it would be necessary to re-generate - the random MY_HOSTID. Following commands ran as root should do it - (as root) without any interactive dialog:: - - sed -i -e 's,PARTICIPATE *= *.no.,PARTICIPATE="yes",g' -e '/^ *MY_HOSTID/d' /etc/popularity-contest.conf - DEBIAN_FRONTEND=noninteractive dpkg-reconfigure popularity-contest - -In addition to popcon pages for your "core" distribution (e.g. `Debian -`__ or `Ubuntu -`__) you can see/get statistics for -submissions to `NeuroDebian `__ and -know that you are already contributing back to the community. +
+
.. toctree:: @@ -342,26 +122,42 @@ know that you are already contributing back to the community. blog/index faq + thanks + popularity + about pkgs spread vm + publications coffeeart photoalbum projects testimonials testimonials-topics + vm_welcome + derivatives + +.. are these supposed to be visible? +.. toctree:: + :hidden: + + machines + todo + +.. toctree:: + :hidden: + :glob: + + pkgs/* + pkglists/* .. probably should be purged altogether .. toctree:: :hidden: - booth_sfn2010 - datasets livecd quotes-nihr01 quotes-nitrc - sources_lists - vm_welcome .. include:: link_names.txt .. include:: substitutions.txt @@ -370,13 +166,13 @@ know that you are already contributing back to the community. - -