-Standart Debian install
+Standard Debian install
hostname: neurodebian
domain: ''
Do a minimal install
--------------------
-make separte vdi images for
-
-* /
-* /tmp
-* /var/cache/apt
-* swap
-
-just base system, run selection, but no tasks
+All files in one partition/
+just base system, run selection, but no tasks (not even 'Standard system')
install new stuff
-----------------
Add sources.list for backports and neurodebian
-
+wget -O /etc/apt/sources.list.d/neuro.debian.net.list http://neuro.debian.net/_static/neurodebian.lenny.us.sources.list
+echo "deb http://www.backports.org/debian lenny-backports main contrib non-free" >> /etc/apt/sources.list.d/backports.org.list
wget -O - http://backports.org/debian/archive.key | apt-key add -
-wget -O - http://neuro.debian.net.asc | apt-key add -
+wget -O - http://neuro.debian.net/_static/neuro.debian.net.asc | apt-key add -
install kernel 2.6.27 (or later) from backports to have support for OpenGL
direct rendering in VirtualBox
+(and deinstall the old one, after a successfull reboot)
# a basic desktop
aptitude install \
alacarte desktop-base evince file-roller gcalctool gdm gksu gnome-core
gnome-keyring gnome-utils gnome-volume-manager gnome-mount gthumb
- bash-completion less mc gnome-themes
+ bash-completion less mc gnome-themes etckeeper git-core gitk ntpdate
+ alsa-utils
+
+# install network manager applet
+# but we don't want to have all the openvpn stuff that pull in an armada of
+# things: I did it by hand in aptitude
# cleanup unwanted stuff
# video drivers (all but vesa)
# random stuff
aptitude purge radeontool sound-juicer
+# setup etckeeper
+etckeeper init
+
# prepare for kernel module building (guest additions)
aptitude install module-assistant
module-assistant prepare
+# note guest additions for 3.1.2 are broken, use 3.1.0
bash /media/cdrom/VBoxLinuxAdditions-amd64.run (need 2.6.27+ kernel for direct rendering)
-
#make sure that xorg.conf has 'vboxvideo' as device driver and also
echo "vboxvideo" >> /etc/modules
adduser brain sudo
visudo
# and uncomment the respective line at the end of the file
-# (make sure there is nothing below it
+# (make sure there is nothing below it)
# configure shared folders
mkdir /mnt/host
mount -t vboxsf host /mnt/host
# better put the following into the session startup config of the user
-sudo mount -t vboxsf -o defaults,uid=brain,gid=brain host /mnt/host
+# stupid wrapping into bash line to workaround a silly bug in Virtualbox additions
+bash -c "cd /; sudo mount -t vboxsf -o defaults,uid=brain,gid=brain host /mnt/host"
# neuro-stuff
aptitude install afni afni-atlases amide caret dicomnifti fsl fsl-atlases lipsia
- minc-tools odin psychopy python-mvpa python-pyepl
+ minc-tools odin psychopy python-mvpa python-pyepl python-mvpa-doc
# general scientifically useful stuff
-aptitude install ipython
+aptitude install ipython python-h5py vim-python
+
+# next step purge network interface config to give the power to network manager
+# important
+adduser brain netdev
+
-mkdir -p .config/backgrounds
-cp /mnt/host/.config/awesome/hotbrain.png .config/backgrounds/
+user config
+-----------
+# put use home dir in git to be able to track changes
+git init
+
+mkdir -p /home/brain/.config/backgrounds
+cp /mnt/host/.config/awesome/hotbrain.png /home/brain/.config/backgrounds/
#change menu icon
sudo cp /mnt/host/hacking/neurodebian/artwork/icon.svg /usr/share/icons/Mist/scalable/places/start-here.svg
# shrink VDI image by writting to a new (unfragmented) image
# target VDI needs to have proper partition table and MBR
-# XXX maybe 'dd' could be used on the fuse-mounted VDIs
-sudo ~/vdfuse-v60 -f ~/.VirtualBox/HardDisks/NeuroDebian.vdi mnt/src
-sudo ~/vdfuse-v60 -f ~/.VirtualBox/HardDisks/nd_test.vdi mnt/dest
-sudo mount -o loop mnt/src/Partition1 src
-sudo mount -o loop mnt/dest/Partition1 dest
-rsync -vxaHD --delete --exclude=src/dev --exclude=src/proc --exclude=src/tmp src dest
+# simplest solution: clonezilla
+
+# clean up the master COPY
+cp ~/vm/nd_master.vdi /tmp/nd_master.vdi
+cd /tmp
+mkdir -p vbdev vbmnt
+# get access to disks inside the VDIs
+sudo vdfuse -f nd_master.vdi vbdev
+# mount partitition
+sudo mount -o loop vbdev/Partition1 vbmnt
+
+# remove cruft
+# package cache
+sudo find vbmnt/var/cache/apt/archives/ -name '*.deb' -delete
+sudo rm vbmnt/var/cache/apt/*.bin
+# device files -- udev restores them
+sudo rm -rf vbmnt/dev/*
+# tmp
+sudo rm -rf vbmnt/tmp/*
+# log files
+sudo find vbmnt/var/log -type f -delete
+# apt lists
+sudo find vbmnt/var/lib/apt -type f -name '*debian*' -o -type f -name '*list*' -delete
+# history
+sudo rm vbmnt/root/.bash_history
+sudo rm vbmnt/home/brain/.bash_history
+
+# unmount filesystem
+sudo umount vbmnt
+# zero out empty space
+sudo zerofree -v vbdev/Partition1
+# close whole VDI
+sudo umount vbdev
+
+# compact VDI
+# THIS NEEDS TO BE DONE ON A VDI THAT IS REGISTERED WITH VIRTUALBOX
+VBoxManage modifyhd nd_master.vdi --compact
+
projects / neurodebian.git / blobdiff