Ubuntu installation list

September 23, 2015

Installation of Ubuntu

Readers are referred to the following links for the creation of a bootable USB stick on different platform.

Ubuntu: bootable usb
Mac: bootable usb
Windows: bootable usb

Installation instruction of Ubuntu is available here. However, the installation is relatively easy even without these instruction.

PPA List

Chrome (double check if it is necessary)

wget -q -O - https://dl-ssl.google.com/linux/linux_signing_key.pub | sudo apt-key add -
sudo sh -c 'echo "deb http://dl.google.com/linux/chrome/deb/ stable main" >> /etc/apt/sources.list.d/chrome.list'

Thunderbird

sudo add-apt-repository ppa:mozillateam/thunderbird-next

RStudio ( This repository currently does not support Ubuntu Vivid. Please ignore this line if you are using Ubuntu 15.04. )
```
sudo add-apt-repository ppa:opencpu/rstudio
```

Julia

sudo add-apt-repository ppa:staticfloat/juliareleases

At the end of adding these repository, we need the following commands to update the package list and upgrade installed packages.

sudo apt-get update
sudo apt-get upgrade
sudo apt-get dist-upgrade

It is also suggested to run sudo apt-get autoremove to remove unnecessary packages.

Installation List

Ubuntu Restricted Extras

sudo apt-get install ubuntu-restricted-extras

Chrome
```
sudo apt-get install google-chrome-beta
```
And following extensions are useful:
- Hangouts
- Unblock Youku
Git
```
sudo apt-get install git
```

LaTeX and Texmaker

sudo apt-get install texlive-full
sudo apt-get install texmaker

Vim

sudo apt-get install vim
git clone https://github.com/VundleVim/Vundle.vim.git ~/.vim/bundle/Vundle.vim

The vimrc file can be found here.

Dropbox
```
sudo apt-get install nautilus-dropbox
```
Thunderbird Thunderbird is installed by default and only upgrading is required. And following add-ons are useful:
- Grammar Checker
- LaTeX It!
- MinimizeToTray revived
Openssh Server
```
sudo apt-get install openssh-server
```

Kerberos

sudo apt-get install krb5-user

Configure the kerberos. Here is an example for corn machines at Stanford.

Create a folder for Control ticket.
```
mkdir ~/.krblog
```

Set up configuration for ssh. Copy the following lines into ~/.ssh/config file.

Host corn corn?? corn.stanford.edu corn??.stanford.edu
GSSAPIKeyExchange yes
GSSAPIAuthentication yes
GSSAPIDelegateCredentials yes
ControlMaster auto
ControlPath ~/.krblog/.%r@%h:%p
ControlPersist yes
ServerAliveInterval 60
ServerAliveCountMax 3

MPICH
```
sudo apt-get install mpich
```

R and RStudio

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

Python, numpy, scipy, matplotlib, ipython and ipython-notebook

sudo apt-get install python-numpy python-scipy python-matplotlib ipython ipython-notebook

Jekyll

sudo apt-get install ruby-dev
sudo gem install jekyll
sudo gem install jekyll-sitemap
sudo apt-get install nodejs

sudo apt-get install ruby-dev
sudo gem install jekyll
sudo gem install jekyll-sitemap
sudo apt-get install nodejs

Julia
```
sudo apt-get install julia
```
CMake
```
sudo apt-get install cmake
```
Valgrind
```
sudo apt-get install valgrind
```
Pinyin Input

Install ibus-pinyin for Ubuntu 10-14.
```
sudo apt-get install ibus-pinyin
```
Install fcitx for Ubuntu 15.
```
sudo apt-get install fcitx
```
With the ibus-pinyin or fcitx installed, we follow the following steps:
1. Click System Settings/Language Support
2. Click Install/Remove Languages... and add Chinese
3. Click System Settings/Language Support and select IBus (Ubuntu 10-14) or fcitx (Ubuntu 15) as the Keyboard input method system.
4. Logout and Re-Login.
5. Configure pinyin input based on different systems. Here we only show an example for Ubuntu 15,
  - Click keyboard button on the status bar, and select Configure.
  - Add Chinese pinyin ( uncheck Only Show Current Language ). The instructions for Ubuntu 10-14 are detailed here.
For detailed instructions, readers are referred to Pinyin Joe’s.
Dput, Uploading packages to PPA
```
sudo apt-get install dput
```

Exfat related packages

sudo apt-get install exfat-utils
sudo apt-get install exfat-fuse

Updating List:

2015-09-25: Added the first version of the Ubuntu package installation instructions.
2015-09-28: Added instructions for Chinese pinyin input.
2015-09-30: Added instructions for dput to upload packages to PPA. And updated the instruction order to avoid the usage of the not installed package.
2015-10-03: Added instructions for Ubuntu restricted extras. This installation includes many useful plug-ins.
2015-10-24: Added instructions for Exfat format related packages. Such that any Exfat format UBS can be read.

Please let me know if any of these packages are not updated via the repositories.

Yingzhou Li

Discussion

I'm a faculty at Fudan University. Follow me on Github and Bitbucket. Hopefully, you will find my code useful. You are also welcome to either email me or post comments below to discuss on these posts.