Computer Configurations – Dean Yergens, PhD

Server Configuration Notes

General Ubuntu
sudo apt-get install gnome-panel
sudo apt-get install gnome-t
sudo apt-get install ddclient

Hard Drive Addition
sudo apt-get install gparted

sudo mkdir /media/hdd1

gksu gedit /etc/fstab
/dev/sdb1 /media/hdd1 ext4 defaults 0 2

VirtualBox Resizing Fix
sudo apt-get install dkms linux-generic
sudo /etc/init.d/vboxadd setup

VMware Player
download VMPlayer

sudo apt-get install build-essential linux-headers-`uname -r`
mv VMware-Player-6.0.0-1295980.x86_64.txt VMware-Player-6.0.0-1295980.x86_64.bundle
chmod +x VMware-Player-6.0.0-1295980.x86_64.bundle
sudo ./VMware-Player-6.0.0-1295980.x86_64.bundle

TrueCrypt
tar -zxvf truecrypt*.gz
sudo ./truecrypt-7.1a-setup-x64

Postgres 9.1

sudo apt-get update
sudo apt-get install postgresql
sudo apt-get install postgresql-9.1 libpq-dev

sudo passwd postgres
su postgres
psql
alter user postgres with password ‘newpassword’;
\q

ODBC

sudo apt-get install unixodbc-bin unixodbc
sudo apt-get install odbc-postgresql
sudo odbcinst -i -d -f /usr/share/psqlodbc/odbcinst.ini.template
sudo odbcinst -i -s -l -n adyoung-pg -f /usr/share/doc/odbc-postgresql/examples/odbc.ini.template
sudo gedit /etc/odbc.ini

Postgres 9.2 (GPU database – http://wiki.postgresql.org/wiki/PGStrom)

sudo add-apt-repository ppa:pitti/postgresql

sudo apt-get update

sudo apt-get install postgresql-9.2
psql –version

sudo apt-get install postgresql-server-dev-9.2

R, RStudio and Tex

sudo -s
gedit /etc/apt/sources.list
Add line:
deb http://cran.cnr.berkeley.edu/bin/linux/ubuntu precise/
save and exit
gpg –keyserver keyserver.ubuntu.com –recv-key E084DAB9
gpg -a –export E084DAB9 | sudo apt-key add –
exit

sudo apt-get update
sudo apt-get install r-base
sudo apt-get install r-base-dev

sudo apt-get install gdebi-core
sudo apt-get install libapparmor1
wget http://download2.rstudio.org/rstudio-server-0.97.551-amd64.deb
sudo gdebi rstudio-server-0.97.551-amd64.deb

sudo apt-add-repository ppa:texlive-backports/ppa
sudo apt-get update
sudo apt-get install texlive

CUDA

http://sn0v.wordpress.com/2012/12/07/installing-cuda-5-on-ubuntu-12-04/

http://www.r-tutor.com/gpu-computing/cuda-installation/cuda5.5-ubuntu

http://superuser.com/questions/568349/how-to-install-gputools-in-r
sudo aptitude install r-base-dev
cd /usr/lib/R
sudo ln -s /usr/share/R/include .

http://stackoverflow.com/questions/18796727/calling-gpu-functions-in-r
sudo ln -s /usr/lib64/R/include /usr/local/cuda-5.5/lib64

Java and IntelliJ

Install JDK
sudo apt-get install openjdk-6-jdk
apt-cache search jdk
export JAVA_HOME=/usr/lib/jvm/java-6-openjdk
export PATH=$PATH:/usr/lib/jvm/java-6-openjdk/bin

IntelliJ IDEA 12
Download from jetbrains.com
tar xfz idea-12.0.tar.gz
run idea.sh from the bin subdirectory