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Data Science Ubuntu
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| # Instructions to build a Data Science VM based on Ubuntu Xenial | |
| ###################################### | |
| # R | |
| ###################################### | |
| # Update CRAN mirror for R | |
| echo "deb https://cran.rstudio.com/bin/linux/ubuntu xenial/" | sudo tee -a /etc/apt/sources.list | |
| ## Secure CRAN mirror and upgrade | |
| sudo apt-key adv --keyserver keyserver.ubuntu.com --recv-keys E084DAB9 | |
| sudo apt-get update | |
| sudo apt-get upgrade | |
| # install R and R compiler | |
| sudo apt-get install r-base r-base-dev | |
| # install R packages from CRAN | |
| sudo su - -c "R -e \"install.packages('tidyverse', repos='http://cran.rstudio.com/')\"" | |
| # Install R packages from github | |
| ## Install dependencies for devtools | |
| sudo apt-get -y install libcurl4-gnutls-dev | |
| sudo apt-get -y install libxml2-dev | |
| sudo apt-get -y install libssl-dev | |
| ## install devtools | |
| sudo su - -c "R -e \"install.packages('devtools', repos='http://cran.rstudio.com/')\"" | |
| ## example | |
| #sudo su - -c "R -e \"devtools::install_github('daattali/shinyjs')\"" | |
| ###################################### | |
| # RStudio | |
| ###################################### | |
| # install RStudio | |
| # NOTE: change to latest version at https://www.rstudio.com/products/rstudio/download2/ | |
| sudo apt-get install gdebi-core | |
| wget https://download1.rstudio.org/rstudio-xenial-1.1.442-amd64.deb | |
| sudo gdebi -n rstudio-xenial-1.1.442-amd64.deb | |
| # install RStudio Server | |
| wget https://download2.rstudio.org/rstudio-server-0.99.903-amd64.deb | |
| sudo gdebi rstudio-server-0.99.903-amd64.deb | |
| ###################################### | |
| # Shiny Server | |
| ###################################### | |
| # Install Shiny Server to run Shiny apps and RMarkdown files | |
| ## first install the 'shiny' and 'rmarkdown' packages | |
| sudo su - -c "R -e \"install.packages('shiny', repos='http://cran.rstudio.com/')\"" | |
| sudo su - -c "R -e \"install.packages('rmarkdown', repos='http://cran.rstudio.com/')\"" | |
| ## then download and install the app from https://www.rstudio.com/products/shiny/download-server/ | |
| $ wget https://download3.rstudio.org/ubuntu-12.04/x86_64/shiny-server-1.5.6.875-amd64.deb | |
| $ sudo gdebi shiny-server-1.5.6.875-amd64.deb | |
| ## Check if server is running at http://localhost:3838/ | |
| ## Admin tutorial: http://docs.rstudio.com/shiny-server/ | |
| ###################################### | |
| # Anaconda | |
| ###################################### | |
| # Install Anaconda | |
| # NOTE: change to latest version https://www.continuum.io/downloads#_unix | |
| wget https://repo.continuum.io/archive/Anaconda3-5.1.0-Linux-x86_64.sh | |
| bash Anaconda3-5.1.0-Linux-x86_64.sh | |
| ## Type spyder to run GUI | |
| # install R-Essentials through conda (R-kernel for jupyter and R packages) | |
| # https://docs.continuum.io/anaconda/r_language | |
| export PATH=~/anaconda3/bin:$PATH | |
| conda install -c r r-essentials | |
| conda install -c anaconda anaconda-navigator | |
| ## to update packages: http://conda.pydata.org/docs/r-with-conda.html | |
| ## TODO: alternative method to install kernel with less dependencies | |
| ## Type ipython notebook | |
| ###################################### | |
| # Databases | |
| ####################################### | |
| ## SQLite | |
| sudo apt-get install -y sqlite3 libsqlite3-dev | |
| ###################################### | |
| # Version control | |
| ####################################### | |
| # Install git | |
| sudo apt-get -y install git-core | |
| ## config git: http://r-pkgs.had.co.nz/git.html | |
| ###################################### | |
| # LAMP | |
| ####################################### | |
| sudo apt-get update | |
| sudo apt-get install apache2 | |
| sudo apache2ctl configtest | |
| ###################################### | |
| # Microservices: DOCKER | |
| ####################################### | |
| # Install Docker | |
| ## Add official GPG key | |
| sudo apt-key adv --keyserver hkp://p80.pool.sks-keyservers.net:80 --recv-keys 58118E89F3A912897C070ADBF76221572C52609D | |
| ## Add the Docker repository | |
| echo "deb https://apt.dockerproject.org/repo ubuntu-xenial main" | sudo tee /etc/apt/sources.list.d/docker.list | |
| sudo apt-get update | |
| ## Make sure you are about to install from the Docker repo instead of the default Ubuntu 16.04 repo: | |
| apt-cache policy docker-engine | |
| ## Install the linux-image-extra kernel package to use the aufs storage driver. | |
| sudo apt-get install linux-image-extra-$(uname -r) | |
| ## Install Docker and check running status | |
| sudo apt-get install -y docker-engine | |
| sudo systemctl status docker | |
| ## Add your username to the docker group to avoid typing sudo whenever you run the docker command | |
| sudo usermod -aG docker $(whoami) | |
| ## Start the Docker deamon and verify if it is installed correctly | |
| sudo service docker start | |
| docker run hello-world |
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