X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=sphinx%2Fvm.rst;h=0ba7fb034fb90ed75ee11a15cd92512b509f729f;hb=869ac4dfdfc3139ceb832519e1f4a3f76d1201e8;hp=7a34c0e197a99738102e140f6976bd3735637890;hpb=1f3e1e3baea966d60a549aaa16e5e03ad890a473;p=neurodebian.git diff --git a/sphinx/vm.rst b/sphinx/vm.rst index 7a34c0e..0ba7fb0 100644 --- a/sphinx/vm.rst +++ b/sphinx/vm.rst @@ -16,10 +16,6 @@ variety of neuroscience software with just a few mouse clicks (e.g. AFNI_, FSL_, PyMVPA_). .. _virtual machine: http://en.wikipedia.org/wiki/Virtual_machine -.. _AFNI: http://afni.nimh.nih.gov/afni/ -.. _Caret: http://brainvis.wustl.edu/wiki/index.php/Caret:About -.. _FSL: http://www.fmrib.ox.ac.uk/fsl/ -.. _PyMVPA: http://www.pymvpa.org The virtual machine contains an installation of `Debian 6.0 (squeeze)`_ with a GNOME_ desktop environment. All installed software comes from standard Debian @@ -39,9 +35,6 @@ whole workstation, where it quickly becomes troublesome to combine the desire for latest research methodology for new studies and the need for stability for ongoing projects. -.. _Debian 6.0 (squeeze): http://www.debian.org/releases/squeeze -.. _GNOME: http://www.gnome.org/ - Installation ~~~~~~~~~~~~ @@ -148,100 +141,123 @@ virtual machine. `[Virtual machine handling video tutorial] Troubleshooting ~~~~~~~~~~~~~~~ -.. raw:: html +.. container:: foldup + + .. container:: expandinstructions + + Click on an item to expand it + + Updating the VM or installing new packages doesn't work + The VM uses as service that tries to figure out the best/closest package + repository for you. In some network environments this service might not work + well, or not at all. To check if this is a problem, you can modify the + respective configuration by hand. Edit ``/etc/apt/sources.list`` (you need + to use ``sudo`` for that) and replace the package repository URL with a + mirror close to you. A comprehensive list of mirrors is available at: + http://www.debian.org/mirror/list -
Click on an item to expand it
+ Pick one and replace all ``geomirror.debian.net`` URLs with the new mirror + URL. For example, in Canada you might want to change:: -Updating the VM or installing new packages doesn't work - The VM uses as service that tries to figure out the best/closest package - repository for you. In some network environments this service might not work - well, or not at all. To check if this is a problem, you can modify the - respective configuration by hand. Edit ``/etc/apt/sources.list`` (you need to - use ``sudo`` for that) and replace the package repository URL with a mirror - close to you. A comprehensive list of mirrors is available at: - http://www.debian.org/mirror/list + deb http://i386-geomirror.debian.net/debian squeeze main non-free contrib - Pick one and replace all ``geomirror.debian.net`` URLs with the new mirror - URL. For example, in Canada you might want to change:: + to:: - deb http://i386-geomirror.debian.net/debian squeeze main non-free contrib + deb http://ftp.ca.debian.org/debian/ squeeze main non-free contrib - to:: + Only modify lines that refer to ``geomirror`` (all of them), but do **not** + modify entries for ``security.debian.org``. - deb http://ftp.ca.debian.org/debian/ squeeze main non-free contrib + Our proxy setup at work prevents APT from downloading packages + APT needs to be told how to access the proxy. Talk to your local sysadmin + and ask for the proxy's address (maybe a username and password too), as well + as the ports for HTTP and FTP proxies. With this information add the + following lines in the file, /etc/apt/apt.conf.d/80proxy. This will ensure + that after an upgrade changes won't be lost:: - Only modify lines that refer to ``geomirror`` (all of them), but do **not** - modify entries for ``security.debian.org``. + Acquire::http::proxy "http://:@:/"; + Acquire::ftp::proxy "ftp://:@:/"; + Acquire::https::proxy "https://:@:/"; -Our proxy setup at work prevents APT from downloading packages - APT needs to be told how to access the proxy. Talk to your local sysadmin - and ask for the proxy's address (maybe a username and password too), as well - as the ports for HTTP and FTP proxies. With this information add the following - lines in the file, /etc/apt/apt.conf.d/80proxy. This will ensure that after an - upgrade changes won't be lost:: + I cannot hear sounds played in the virtual machine + By default the sound is muted. To enable playback launch the mixer applet by + clicking on the mixer icon in the task bar. Unmute the master volume + control. Now click on the "Volume control" to load the channel mixer dialog. + Unmute the "Master" and "PCM" channels and raise the volume as desired. You + should now be able to hear sounds played within the virtual machines through + your host computer's speakers. - Acquire::http::proxy "http://:@:/"; - Acquire::ftp::proxy "ftp://:@:/"; - Acquire::https::proxy "https://:@:/"; + My VM lost mounted host directories after upgrading from VirtualBox from 3.x to 4.x + NeuroDebian VMs prior 6.0.3 were shipped with guest additions from + 3.x series of VirtualBox and some initial versions of VirtualBox in + 4.x series have failed to mount host directories properly. + VirtualBox 4.0.8 seems to work fine with guest additions from 3.x + series. If you nevertheless want to upgrade guest additions within + NeuroDebian VM, please rebuild the version available from the + backports:: -I cannot hear sounds played in the virtual machine - By default the sound is muted. To enable playback launch the mixer applet by - clicking on the mixer icon in the task bar. Unmute the master volume control. - Now click on the "Volume control" to load the channel mixer dialog. Unmute - the "Master" and "PCM" channels and raise the volume as desired. You should - now be able to hear sounds played within the virtual machines through your - host computer's speakers. + sudo apt-get install -y linux-headers-2.6-amd64 # or -686 for 32bit + sudo apt-get install -y -t squeeze-backports virtualbox-ose-guest-dkms \ + virtualbox-ose-guest-utils virtualbox-ose-guest-x11 -My VM lost mounted host directories after upgrading from VirtualBox from 3.x to 4.x - NeuroDebian VMs prior 6.0.3 were shipped with guest additions from - 3.x series of VirtualBox and some initial versions of VirtualBox in - 4.x series have failed to mount host directories properly. - VirtualBox 4.0.8 seems to work fine with guest additions from 3.x - series. If you nevertheless want to upgrade guest additions within - NeuroDebian VM, please rebuild the version available from the - backports:: + and reboot VM. - sudo apt-get install -y linux-headers-2.6-amd64 # or -686 for 32bit - sudo apt-get install -y -t squeeze-backports virtualbox-ose-guest-dkms \ - virtualbox-ose-guest-utils virtualbox-ose-guest-x11 + I am still running an older VirtualBox 3.x + Download one of the image files listed below. These older releases + are distributed as a `zip` file. Please extract all files from the + `.zip` file, using appropriate software for your operating system. - and reboot VM. + * `NeuroDebian 6.0.2 image (32bit) + `_ [~545MB] + + * `NeuroDebian 6.0.2 image (64bit) + `_ [~560MB] What has changed ---------------- -.. raw:: html +.. container:: foldup + + .. container:: expandinstructions + + Click on an item to expand it + + 6.999.b4.20130421 -- 22 Apr 2013 + * Refreshed VM appliance to avoid lengthy initial upgrade -
Click on an item to expand it
+ 6.999.b4.20121231 -- 31 Dec 2012 + * Based on beta 4 release of debian-installer_ for wheezy + * Comes with XFCE4_ instead of GNOME_ -6.0.6 -- 01 Oct 2012 + 6.0.6 -- 01 Oct 2012 + * Updated core system to Debian squeeze 6.0.6 - * Updated core system to Debian squeeze 6.0.6 + 6.0.5 -- 10 Nov 2011 + * Updated core system to Debian squeeze 6.0.3 + * Updated shipped virtualbox-ose guest-utils and guest-x11 to 4.0.10 -6.0.5 -- 10 Nov 2011 - * Updated core system to Debian squeeze 6.0.3 - * Updated shipped virtualbox-ose guest-utils and guest-x11 to 4.0.10 + - ``~/host`` is now symlinked to correct path ``/media/sf_host`` + - ``brain`` user is added to ``vboxsf`` group so mounted host + directories should become readily available - - ``~/host`` is now symlinked to correct path ``/media/sf_host`` - - ``brain`` user is added to ``vboxsf`` group so mounted host - directories should become readily available + * Root partition size and swap space got doubled in size (40GB + and 2GB correspondingly). Space is allocated dynamically so + the actual size of the virtual drive should not grow unless + you use it - * Root partition size and swap space got doubled in size (40GB - and 2GB correspondingly). Space is allocated dynamically so - the actual size of the virtual drive should not grow unless - you use it + 6.0.4 -- 13 Jun 2011 + * Updated shipped virtualbox-ose guest-utils and guest-x11 to 4.0.4 -6.0.4 -- 13 Jun 2011 - * Updated shipped virtualbox-ose guest-utils and guest-x11 to 4.0.4 + 6.0.3 -- 12 Jun 2011 [Superseded in the archive by 6.0.4] + * Updated to Squeeze 6.0.1 + * Updated VirtualBox guest additions to 4.0.4 from backports.debian.org + * Appliance is available as a single file (.ova) ready for the import -6.0.3 -- 12 Jun 2011 [Superseded in the archive by 6.0.4] - * Updated to Squeeze 6.0.1 - * Updated VirtualBox guest additions to 4.0.4 from backports.debian.org - * Appliance is available as a single file (.ova) ready for the import + 6.0.2 -- 08 Feb 2011 + * Minor update -6.0.2 -- 08 Feb 2011 - * Minor update + 6.0.1 -- 01 Dec 2010 + * Minor update -6.0.1 -- 01 Dec 2010 - * Minor update +.. include:: link_names.txt